-- dump date 20140619_041730 -- class Genbank::misc_feature -- table misc_feature_note -- id note 290398000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 290398000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 290398000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398000004 Walker A motif; other site 290398000005 ATP binding site [chemical binding]; other site 290398000006 Walker B motif; other site 290398000007 arginine finger; other site 290398000008 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 290398000009 DnaA box-binding interface [nucleotide binding]; other site 290398000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 290398000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 290398000012 putative DNA binding surface [nucleotide binding]; other site 290398000013 dimer interface [polypeptide binding]; other site 290398000014 beta-clamp/clamp loader binding surface; other site 290398000015 beta-clamp/translesion DNA polymerase binding surface; other site 290398000016 recombination protein F; Reviewed; Region: recF; PRK00064 290398000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398000018 Walker A/P-loop; other site 290398000019 ATP binding site [chemical binding]; other site 290398000020 Q-loop/lid; other site 290398000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398000022 ABC transporter signature motif; other site 290398000023 Walker B; other site 290398000024 D-loop; other site 290398000025 H-loop/switch region; other site 290398000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 290398000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398000028 ATP binding site [chemical binding]; other site 290398000029 Mg2+ binding site [ion binding]; other site 290398000030 G-X-G motif; other site 290398000031 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 290398000032 anchoring element; other site 290398000033 dimer interface [polypeptide binding]; other site 290398000034 ATP binding site [chemical binding]; other site 290398000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 290398000036 active site 290398000037 putative metal-binding site [ion binding]; other site 290398000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 290398000039 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 290398000040 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398000041 active site 290398000042 motif I; other site 290398000043 motif II; other site 290398000044 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 290398000045 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 290398000046 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 290398000047 dimer interface [polypeptide binding]; other site 290398000048 motif 1; other site 290398000049 active site 290398000050 motif 2; other site 290398000051 motif 3; other site 290398000052 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 290398000053 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 290398000054 NADP binding site [chemical binding]; other site 290398000055 homopentamer interface [polypeptide binding]; other site 290398000056 substrate binding site [chemical binding]; other site 290398000057 active site 290398000058 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 290398000059 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 290398000060 putative active site [active] 290398000061 Sulfatase; Region: Sulfatase; cl17466 290398000062 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 290398000063 putative metal binding site; other site 290398000064 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 290398000065 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 290398000066 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 290398000067 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398000068 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 290398000069 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 290398000070 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 290398000071 Sulfatase; Region: Sulfatase; cl17466 290398000072 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 290398000073 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 290398000074 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 290398000075 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 290398000076 putative active site [active] 290398000077 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 290398000078 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 290398000079 putative ribose interaction site [chemical binding]; other site 290398000080 putative ADP binding site [chemical binding]; other site 290398000081 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 290398000082 active site 290398000083 HIGH motif; other site 290398000084 nucleotide binding site [chemical binding]; other site 290398000085 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 290398000086 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 290398000087 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 290398000088 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 290398000089 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290398000090 active site 290398000091 dimer interface [polypeptide binding]; other site 290398000092 threonine dehydratase; Reviewed; Region: PRK09224 290398000093 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 290398000094 tetramer interface [polypeptide binding]; other site 290398000095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398000096 catalytic residue [active] 290398000097 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 290398000098 putative Ile/Val binding site [chemical binding]; other site 290398000099 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 290398000100 putative Ile/Val binding site [chemical binding]; other site 290398000101 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 290398000102 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 290398000103 Cell division protein ZapA; Region: ZapA; pfam05164 290398000104 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 290398000105 proline aminopeptidase P II; Provisional; Region: PRK10879 290398000106 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 290398000107 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 290398000108 active site 290398000109 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 290398000110 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 290398000111 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290398000112 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 290398000113 PAS domain; Region: PAS; smart00091 290398000114 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 290398000115 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398000116 Walker A motif; other site 290398000117 ATP binding site [chemical binding]; other site 290398000118 Walker B motif; other site 290398000119 arginine finger; other site 290398000120 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290398000121 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 290398000122 Na binding site [ion binding]; other site 290398000123 acetylornithine deacetylase; Validated; Region: PRK06915 290398000124 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 290398000125 metal binding site [ion binding]; metal-binding site 290398000126 dimer interface [polypeptide binding]; other site 290398000127 allantoate amidohydrolase; Reviewed; Region: PRK12893 290398000128 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 290398000129 active site 290398000130 metal binding site [ion binding]; metal-binding site 290398000131 dimer interface [polypeptide binding]; other site 290398000132 Uncharacterized conserved protein [Function unknown]; Region: COG3791 290398000133 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290398000134 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290398000135 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398000136 dimer interface [polypeptide binding]; other site 290398000137 putative CheW interface [polypeptide binding]; other site 290398000138 YcaO domain protein; Region: TIGR03549 290398000139 OsmC-like protein; Region: OsmC; pfam02566 290398000140 YcaO-like family; Region: YcaO; pfam02624 290398000141 Uncharacterized conserved protein [Function unknown]; Region: COG1683 290398000142 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290398000143 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398000144 Coenzyme A binding pocket [chemical binding]; other site 290398000145 OsmC-like protein; Region: OsmC; cl00767 290398000146 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398000147 EamA-like transporter family; Region: EamA; cl17759 290398000148 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 290398000149 EamA-like transporter family; Region: EamA; pfam00892 290398000150 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398000151 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290398000152 putative substrate translocation pore; other site 290398000153 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290398000154 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398000155 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398000156 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290398000157 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290398000158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398000159 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 290398000160 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 290398000161 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 290398000162 protein binding site [polypeptide binding]; other site 290398000163 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 290398000164 Catalytic dyad [active] 290398000165 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 290398000166 Predicted membrane protein [Function unknown]; Region: COG4709 290398000167 Peptidase family M23; Region: Peptidase_M23; pfam01551 290398000168 phosphoglyceromutase; Provisional; Region: PRK05434 290398000169 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 290398000170 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 290398000171 active site residue [active] 290398000172 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 290398000173 SecA binding site; other site 290398000174 Preprotein binding site; other site 290398000175 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 290398000176 RNA methyltransferase, RsmE family; Region: TIGR00046 290398000177 Pirin-related protein [General function prediction only]; Region: COG1741 290398000178 Pirin; Region: Pirin; pfam02678 290398000179 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 290398000180 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 290398000181 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290398000182 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398000183 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 290398000184 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 290398000185 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290398000186 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398000187 Walker A/P-loop; other site 290398000188 ATP binding site [chemical binding]; other site 290398000189 Q-loop/lid; other site 290398000190 ABC transporter signature motif; other site 290398000191 Walker B; other site 290398000192 D-loop; other site 290398000193 H-loop/switch region; other site 290398000194 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 290398000195 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 290398000196 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 290398000197 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 290398000198 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 290398000199 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 290398000200 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 290398000201 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 290398000202 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 290398000203 S1 domain; Region: S1_2; pfam13509 290398000204 glutathione synthetase; Provisional; Region: PRK05246 290398000205 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 290398000206 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 290398000207 hypothetical protein; Validated; Region: PRK00228 290398000208 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 290398000209 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 290398000210 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290398000211 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 290398000212 putative active site [active] 290398000213 catalytic triad [active] 290398000214 putative dimer interface [polypeptide binding]; other site 290398000215 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290398000216 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 290398000217 DNA binding residues [nucleotide binding] 290398000218 dimerization interface [polypeptide binding]; other site 290398000219 aspartate carbamoyltransferase; Provisional; Region: PRK08192 290398000220 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290398000221 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290398000222 short chain dehydrogenase; Provisional; Region: PRK06701 290398000223 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 290398000224 NAD binding site [chemical binding]; other site 290398000225 metal binding site [ion binding]; metal-binding site 290398000226 active site 290398000227 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 290398000228 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 290398000229 transcriptional repressor IclR; Provisional; Region: PRK11569 290398000230 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 290398000231 Bacterial transcriptional regulator; Region: IclR; pfam01614 290398000232 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 290398000233 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 290398000234 active site 290398000235 homotetramer interface [polypeptide binding]; other site 290398000236 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398000237 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398000238 DNA-binding site [nucleotide binding]; DNA binding site 290398000239 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290398000240 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 290398000241 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 290398000242 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290398000243 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398000244 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290398000245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290398000246 DNA binding site [nucleotide binding] 290398000247 domain linker motif; other site 290398000248 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 290398000249 putative dimerization interface [polypeptide binding]; other site 290398000250 putative ligand binding site [chemical binding]; other site 290398000251 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 290398000252 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 290398000253 Na binding site [ion binding]; other site 290398000254 putative substrate binding site [chemical binding]; other site 290398000255 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 290398000256 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 290398000257 Na binding site [ion binding]; other site 290398000258 substrate binding site [chemical binding]; other site 290398000259 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 290398000260 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 290398000261 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 290398000262 active site 290398000263 catalytic site [active] 290398000264 tetramer interface [polypeptide binding]; other site 290398000265 hypothetical protein; Provisional; Region: PRK11171 290398000266 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 290398000267 Cupin domain; Region: Cupin_2; pfam07883 290398000268 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 290398000269 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 290398000270 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 290398000271 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 290398000272 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 290398000273 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 290398000274 Chromate transporter; Region: Chromate_transp; pfam02417 290398000275 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 290398000276 HsdM N-terminal domain; Region: HsdM_N; pfam12161 290398000277 Methyltransferase domain; Region: Methyltransf_26; pfam13659 290398000278 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 290398000279 Divergent AAA domain; Region: AAA_4; pfam04326 290398000280 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 290398000281 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 290398000282 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398000283 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 290398000284 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398000285 ATP binding site [chemical binding]; other site 290398000286 putative Mg++ binding site [ion binding]; other site 290398000287 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 290398000288 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 290398000289 active site residue [active] 290398000290 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 290398000291 Na binding site [ion binding]; other site 290398000292 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 290398000293 homotrimer interaction site [polypeptide binding]; other site 290398000294 putative active site [active] 290398000295 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 290398000296 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 290398000297 active site 290398000298 putative substrate binding pocket [chemical binding]; other site 290398000299 D-aminoacylase, C-terminal region; Region: D-aminoacyl_C; pfam07908 290398000300 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290398000301 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290398000302 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 290398000303 putative active site [active] 290398000304 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 290398000305 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 290398000306 dimer interface [polypeptide binding]; other site 290398000307 active site 290398000308 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290398000309 substrate binding site [chemical binding]; other site 290398000310 catalytic residue [active] 290398000311 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 290398000312 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398000313 N-terminal plug; other site 290398000314 ligand-binding site [chemical binding]; other site 290398000315 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 290398000316 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 290398000317 ligand binding site [chemical binding]; other site 290398000318 NAD binding site [chemical binding]; other site 290398000319 tetramer interface [polypeptide binding]; other site 290398000320 catalytic site [active] 290398000321 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 290398000322 L-serine binding site [chemical binding]; other site 290398000323 ACT domain interface; other site 290398000324 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 290398000325 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290398000326 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290398000327 substrate binding pocket [chemical binding]; other site 290398000328 chain length determination region; other site 290398000329 substrate-Mg2+ binding site; other site 290398000330 catalytic residues [active] 290398000331 aspartate-rich region 1; other site 290398000332 active site lid residues [active] 290398000333 aspartate-rich region 2; other site 290398000334 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 290398000335 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 290398000336 TPP-binding site; other site 290398000337 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 290398000338 PYR/PP interface [polypeptide binding]; other site 290398000339 dimer interface [polypeptide binding]; other site 290398000340 TPP binding site [chemical binding]; other site 290398000341 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290398000342 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 290398000343 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 290398000344 putative metal binding site [ion binding]; other site 290398000345 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 290398000346 HSP70 interaction site [polypeptide binding]; other site 290398000347 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 290398000348 active site 290398000349 homotetramer interface [polypeptide binding]; other site 290398000350 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 290398000351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398000352 active site 290398000353 phosphorylation site [posttranslational modification] 290398000354 intermolecular recognition site; other site 290398000355 dimerization interface [polypeptide binding]; other site 290398000356 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398000357 DNA binding site [nucleotide binding] 290398000358 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 290398000359 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398000360 dimer interface [polypeptide binding]; other site 290398000361 phosphorylation site [posttranslational modification] 290398000362 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398000363 ATP binding site [chemical binding]; other site 290398000364 G-X-G motif; other site 290398000365 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398000366 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290398000367 PGAP1-like protein; Region: PGAP1; pfam07819 290398000368 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290398000369 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398000370 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 290398000371 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 290398000372 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 290398000373 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 290398000374 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 290398000375 Nucleoside recognition; Region: Gate; pfam07670 290398000376 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 290398000377 Predicted membrane protein [Function unknown]; Region: COG2323 290398000378 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290398000379 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290398000380 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 290398000381 Walker A/P-loop; other site 290398000382 ATP binding site [chemical binding]; other site 290398000383 Q-loop/lid; other site 290398000384 ABC transporter signature motif; other site 290398000385 Walker B; other site 290398000386 D-loop; other site 290398000387 H-loop/switch region; other site 290398000388 Haemolysin-III related; Region: HlyIII; cl03831 290398000389 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 290398000390 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 290398000391 dimerization interface [polypeptide binding]; other site 290398000392 active site 290398000393 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 290398000394 substrate binding site [chemical binding]; other site 290398000395 active site 290398000396 Protein of unknown function, DUF393; Region: DUF393; pfam04134 290398000397 spermidine synthase; Provisional; Region: PRK00811 290398000398 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398000399 S-adenosylmethionine binding site [chemical binding]; other site 290398000400 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 290398000401 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398000402 substrate binding pocket [chemical binding]; other site 290398000403 membrane-bound complex binding site; other site 290398000404 hinge residues; other site 290398000405 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 290398000406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000407 conserved gate region; other site 290398000408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000409 dimer interface [polypeptide binding]; other site 290398000410 conserved gate region; other site 290398000411 putative PBP binding loops; other site 290398000412 ABC-ATPase subunit interface; other site 290398000413 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000414 dimer interface [polypeptide binding]; other site 290398000415 conserved gate region; other site 290398000416 putative PBP binding loops; other site 290398000417 ABC-ATPase subunit interface; other site 290398000418 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290398000419 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290398000420 Walker A/P-loop; other site 290398000421 ATP binding site [chemical binding]; other site 290398000422 Q-loop/lid; other site 290398000423 ABC transporter signature motif; other site 290398000424 Walker B; other site 290398000425 D-loop; other site 290398000426 H-loop/switch region; other site 290398000427 Protein required for attachment to host cells; Region: Host_attach; pfam10116 290398000428 Cache domain; Region: Cache_1; pfam02743 290398000429 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398000430 dimerization interface [polypeptide binding]; other site 290398000431 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290398000432 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398000433 dimer interface [polypeptide binding]; other site 290398000434 putative CheW interface [polypeptide binding]; other site 290398000435 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 290398000436 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398000437 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 290398000438 putative dimerization interface [polypeptide binding]; other site 290398000439 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 290398000440 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 290398000441 FAD binding pocket [chemical binding]; other site 290398000442 FAD binding motif [chemical binding]; other site 290398000443 phosphate binding motif [ion binding]; other site 290398000444 beta-alpha-beta structure motif; other site 290398000445 NAD binding pocket [chemical binding]; other site 290398000446 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290398000447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398000448 DNA-binding site [nucleotide binding]; DNA binding site 290398000449 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 290398000450 [2Fe-2S] cluster binding site [ion binding]; other site 290398000451 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290398000452 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 290398000453 [2Fe-2S] cluster binding site [ion binding]; other site 290398000454 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 290398000455 hydrophobic ligand binding site; other site 290398000456 short chain dehydrogenase; Provisional; Region: PRK12939 290398000457 classical (c) SDRs; Region: SDR_c; cd05233 290398000458 NAD(P) binding site [chemical binding]; other site 290398000459 active site 290398000460 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 290398000461 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290398000462 Bacterial transcriptional regulator; Region: IclR; pfam01614 290398000463 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 290398000464 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290398000465 putative active site [active] 290398000466 putative metal binding site [ion binding]; other site 290398000467 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 290398000468 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398000469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398000470 D-galactonate transporter; Region: 2A0114; TIGR00893 290398000471 putative substrate translocation pore; other site 290398000472 Cupin domain; Region: Cupin_2; pfam07883 290398000473 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398000474 short chain dehydrogenase; Provisional; Region: PRK07062 290398000475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398000476 NAD(P) binding site [chemical binding]; other site 290398000477 active site 290398000478 L-aspartate dehydrogenase; Provisional; Region: PRK13303 290398000479 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 290398000480 Domain of unknown function DUF108; Region: DUF108; pfam01958 290398000481 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290398000482 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 290398000483 NAD(P) binding site [chemical binding]; other site 290398000484 catalytic residues [active] 290398000485 hypothetical protein; Provisional; Region: PRK07064 290398000486 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290398000487 PYR/PP interface [polypeptide binding]; other site 290398000488 dimer interface [polypeptide binding]; other site 290398000489 TPP binding site [chemical binding]; other site 290398000490 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290398000491 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 290398000492 TPP-binding site [chemical binding]; other site 290398000493 Uncharacterized conserved protein [Function unknown]; Region: COG3339 290398000494 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 290398000495 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290398000496 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398000497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398000498 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290398000499 dimerization interface [polypeptide binding]; other site 290398000500 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 290398000501 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290398000502 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 290398000503 Sporulation related domain; Region: SPOR; pfam05036 290398000504 transcriptional regulator protein; Region: phnR; TIGR03337 290398000505 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398000506 DNA-binding site [nucleotide binding]; DNA binding site 290398000507 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290398000508 putative amidase; Provisional; Region: PRK06169 290398000509 Amidase; Region: Amidase; pfam01425 290398000510 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290398000511 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290398000512 Walker A/P-loop; other site 290398000513 ATP binding site [chemical binding]; other site 290398000514 Q-loop/lid; other site 290398000515 ABC transporter signature motif; other site 290398000516 Walker B; other site 290398000517 D-loop; other site 290398000518 H-loop/switch region; other site 290398000519 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290398000520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000521 dimer interface [polypeptide binding]; other site 290398000522 conserved gate region; other site 290398000523 putative PBP binding loops; other site 290398000524 ABC-ATPase subunit interface; other site 290398000525 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290398000526 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000527 dimer interface [polypeptide binding]; other site 290398000528 conserved gate region; other site 290398000529 putative PBP binding loops; other site 290398000530 ABC-ATPase subunit interface; other site 290398000531 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290398000532 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398000533 substrate binding pocket [chemical binding]; other site 290398000534 membrane-bound complex binding site; other site 290398000535 hinge residues; other site 290398000536 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 290398000537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398000538 DNA-binding site [nucleotide binding]; DNA binding site 290398000539 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398000540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398000541 homodimer interface [polypeptide binding]; other site 290398000542 catalytic residue [active] 290398000543 hypothetical protein; Provisional; Region: PRK06062 290398000544 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398000545 inhibitor-cofactor binding pocket; inhibition site 290398000546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398000547 catalytic residue [active] 290398000548 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 290398000549 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 290398000550 heme binding site [chemical binding]; other site 290398000551 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 290398000552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398000553 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 290398000554 NAD(P) binding site [chemical binding]; other site 290398000555 active site 290398000556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398000557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398000558 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 290398000559 putative dimerization interface [polypeptide binding]; other site 290398000560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 290398000561 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 290398000562 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 290398000563 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290398000564 Dienelactone hydrolase family; Region: DLH; pfam01738 290398000565 Cupin domain; Region: Cupin_2; pfam07883 290398000566 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 290398000567 TspO/MBR family; Region: TspO_MBR; pfam03073 290398000568 Predicted membrane protein [Function unknown]; Region: COG1971 290398000569 Domain of unknown function DUF; Region: DUF204; pfam02659 290398000570 Domain of unknown function DUF; Region: DUF204; pfam02659 290398000571 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 290398000572 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 290398000573 Trp docking motif [polypeptide binding]; other site 290398000574 putative active site [active] 290398000575 hypothetical protein; Provisional; Region: PRK09256 290398000576 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 290398000577 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 290398000578 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 290398000579 putative active site pocket [active] 290398000580 dimerization interface [polypeptide binding]; other site 290398000581 putative catalytic residue [active] 290398000582 EamA-like transporter family; Region: EamA; pfam00892 290398000583 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 290398000584 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398000585 dimerization interface [polypeptide binding]; other site 290398000586 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398000587 dimer interface [polypeptide binding]; other site 290398000588 putative CheW interface [polypeptide binding]; other site 290398000589 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 290398000590 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 290398000591 CGNR zinc finger; Region: zf-CGNR; pfam11706 290398000592 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290398000593 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398000594 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 290398000595 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 290398000596 dimer interface [polypeptide binding]; other site 290398000597 decamer (pentamer of dimers) interface [polypeptide binding]; other site 290398000598 catalytic triad [active] 290398000599 DsrE/DsrF-like family; Region: DrsE; pfam02635 290398000600 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290398000601 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290398000602 Walker A/P-loop; other site 290398000603 ATP binding site [chemical binding]; other site 290398000604 Q-loop/lid; other site 290398000605 ABC transporter signature motif; other site 290398000606 Walker B; other site 290398000607 D-loop; other site 290398000608 H-loop/switch region; other site 290398000609 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290398000610 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 290398000611 NMT1-like family; Region: NMT1_2; pfam13379 290398000612 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 290398000613 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290398000614 NlpC/P60 family; Region: NLPC_P60; pfam00877 290398000615 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 290398000616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398000617 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398000618 dimerization interface [polypeptide binding]; other site 290398000619 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290398000620 YodA lipocalin-like domain; Region: YodA; pfam09223 290398000621 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 290398000622 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 290398000623 metal binding site [ion binding]; metal-binding site 290398000624 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 290398000625 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 290398000626 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 290398000627 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 290398000628 dimer interface [polypeptide binding]; other site 290398000629 ABC-ATPase subunit interface; other site 290398000630 putative GTP cyclohydrolase; Provisional; Region: PRK13674 290398000631 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 290398000632 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 290398000633 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 290398000634 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 290398000635 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290398000636 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 290398000637 threonine and homoserine efflux system; Provisional; Region: PRK10532 290398000638 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 290398000639 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398000640 non-specific DNA binding site [nucleotide binding]; other site 290398000641 salt bridge; other site 290398000642 sequence-specific DNA binding site [nucleotide binding]; other site 290398000643 Cupin domain; Region: Cupin_2; pfam07883 290398000644 Domain of unknown function (DUF427); Region: DUF427; pfam04248 290398000645 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 290398000646 aspartate racemase; Region: asp_race; TIGR00035 290398000647 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 290398000648 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 290398000649 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 290398000650 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 290398000651 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 290398000652 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 290398000653 dimer interface [polypeptide binding]; other site 290398000654 FMN binding site [chemical binding]; other site 290398000655 NADPH bind site [chemical binding]; other site 290398000656 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398000657 putative MFS family transporter protein; Provisional; Region: PRK03633 290398000658 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 290398000659 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290398000660 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 290398000661 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 290398000662 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 290398000663 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 290398000664 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 290398000665 ligand binding site [chemical binding]; other site 290398000666 regulator interaction site; other site 290398000667 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 290398000668 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 290398000669 ANTAR domain; Region: ANTAR; pfam03861 290398000670 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 290398000671 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000672 dimer interface [polypeptide binding]; other site 290398000673 conserved gate region; other site 290398000674 putative PBP binding loops; other site 290398000675 ABC-ATPase subunit interface; other site 290398000676 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290398000677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000678 dimer interface [polypeptide binding]; other site 290398000679 conserved gate region; other site 290398000680 putative PBP binding loops; other site 290398000681 ABC-ATPase subunit interface; other site 290398000682 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290398000683 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 290398000684 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 290398000685 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 290398000686 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290398000687 Walker A/P-loop; other site 290398000688 ATP binding site [chemical binding]; other site 290398000689 Q-loop/lid; other site 290398000690 ABC transporter signature motif; other site 290398000691 Walker B; other site 290398000692 D-loop; other site 290398000693 H-loop/switch region; other site 290398000694 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290398000695 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290398000696 Walker A/P-loop; other site 290398000697 ATP binding site [chemical binding]; other site 290398000698 Q-loop/lid; other site 290398000699 ABC transporter signature motif; other site 290398000700 Walker B; other site 290398000701 D-loop; other site 290398000702 H-loop/switch region; other site 290398000703 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 290398000704 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 290398000705 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290398000706 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398000707 Fusaric acid resistance protein family; Region: FUSC; pfam04632 290398000708 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 290398000709 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290398000710 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 290398000711 dimer interface [polypeptide binding]; other site 290398000712 active site 290398000713 metal binding site [ion binding]; metal-binding site 290398000714 glutathione binding site [chemical binding]; other site 290398000715 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 290398000716 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 290398000717 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290398000718 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 290398000719 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 290398000720 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 290398000721 intersubunit interface [polypeptide binding]; other site 290398000722 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 290398000723 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 290398000724 ABC-ATPase subunit interface; other site 290398000725 dimer interface [polypeptide binding]; other site 290398000726 putative PBP binding regions; other site 290398000727 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 290398000728 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 290398000729 choline transport protein BetT; Provisional; Region: PRK09928 290398000730 helicase Cas3; Provisional; Region: PRK09694 290398000731 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 290398000732 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 290398000733 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398000734 non-specific DNA binding site [nucleotide binding]; other site 290398000735 salt bridge; other site 290398000736 sequence-specific DNA binding site [nucleotide binding]; other site 290398000737 HipA-like N-terminal domain; Region: HipA_N; pfam07805 290398000738 HipA-like C-terminal domain; Region: HipA_C; pfam07804 290398000739 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 290398000740 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 290398000741 CT1975-like protein; Region: Cas_CT1975; pfam09344 290398000742 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 290398000743 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 290398000744 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 290398000745 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 290398000746 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 290398000747 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 290398000748 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 290398000749 active site 290398000750 homotetramer interface [polypeptide binding]; other site 290398000751 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 290398000752 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 290398000753 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 290398000754 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 290398000755 OmpW family; Region: OmpW; cl17427 290398000756 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 290398000757 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 290398000758 G1 box; other site 290398000759 putative GEF interaction site [polypeptide binding]; other site 290398000760 GTP/Mg2+ binding site [chemical binding]; other site 290398000761 Switch I region; other site 290398000762 G2 box; other site 290398000763 G3 box; other site 290398000764 Switch II region; other site 290398000765 G4 box; other site 290398000766 G5 box; other site 290398000767 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 290398000768 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 290398000769 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 290398000770 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 290398000771 putative active site [active] 290398000772 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 290398000773 glutamine synthetase; Provisional; Region: glnA; PRK09469 290398000774 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 290398000775 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290398000776 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 290398000777 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 290398000778 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398000779 dimer interface [polypeptide binding]; other site 290398000780 phosphorylation site [posttranslational modification] 290398000781 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398000782 ATP binding site [chemical binding]; other site 290398000783 Mg2+ binding site [ion binding]; other site 290398000784 G-X-G motif; other site 290398000785 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 290398000786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398000787 active site 290398000788 phosphorylation site [posttranslational modification] 290398000789 intermolecular recognition site; other site 290398000790 dimerization interface [polypeptide binding]; other site 290398000791 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398000792 Walker A motif; other site 290398000793 ATP binding site [chemical binding]; other site 290398000794 Walker B motif; other site 290398000795 arginine finger; other site 290398000796 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290398000797 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 290398000798 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 290398000799 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 290398000800 Walker A/P-loop; other site 290398000801 ATP binding site [chemical binding]; other site 290398000802 Q-loop/lid; other site 290398000803 ABC transporter signature motif; other site 290398000804 Walker B; other site 290398000805 D-loop; other site 290398000806 H-loop/switch region; other site 290398000807 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 290398000808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000809 dimer interface [polypeptide binding]; other site 290398000810 conserved gate region; other site 290398000811 ABC-ATPase subunit interface; other site 290398000812 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 290398000813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000814 dimer interface [polypeptide binding]; other site 290398000815 conserved gate region; other site 290398000816 ABC-ATPase subunit interface; other site 290398000817 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 290398000818 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 290398000819 tetramer interface [polypeptide binding]; other site 290398000820 active site 290398000821 Mg2+/Mn2+ binding site [ion binding]; other site 290398000822 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 290398000823 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290398000824 Zn2+ binding site [ion binding]; other site 290398000825 Mg2+ binding site [ion binding]; other site 290398000826 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 290398000827 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 290398000828 trimer interface; other site 290398000829 sugar binding site [chemical binding]; other site 290398000830 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 290398000831 Na binding site [ion binding]; other site 290398000832 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 290398000833 trimer interface; other site 290398000834 sugar binding site [chemical binding]; other site 290398000835 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290398000836 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290398000837 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290398000838 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000839 dimer interface [polypeptide binding]; other site 290398000840 conserved gate region; other site 290398000841 putative PBP binding loops; other site 290398000842 ABC-ATPase subunit interface; other site 290398000843 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290398000844 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398000845 dimer interface [polypeptide binding]; other site 290398000846 conserved gate region; other site 290398000847 ABC-ATPase subunit interface; other site 290398000848 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 290398000849 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290398000850 active site 290398000851 catalytic site [active] 290398000852 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 290398000853 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290398000854 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290398000855 Walker A/P-loop; other site 290398000856 ATP binding site [chemical binding]; other site 290398000857 Q-loop/lid; other site 290398000858 ABC transporter signature motif; other site 290398000859 Walker B; other site 290398000860 D-loop; other site 290398000861 H-loop/switch region; other site 290398000862 TOBE domain; Region: TOBE_2; pfam08402 290398000863 Nuclease-related domain; Region: NERD; pfam08378 290398000864 NAD-dependent deacetylase; Provisional; Region: PRK05333 290398000865 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 290398000866 NAD+ binding site [chemical binding]; other site 290398000867 substrate binding site [chemical binding]; other site 290398000868 Zn binding site [ion binding]; other site 290398000869 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 290398000870 translation initiation factor Sui1; Validated; Region: PRK06824 290398000871 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 290398000872 putative rRNA binding site [nucleotide binding]; other site 290398000873 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 290398000874 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 290398000875 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398000876 motif II; other site 290398000877 DctM-like transporters; Region: DctM; pfam06808 290398000878 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398000879 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398000880 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398000881 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398000882 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290398000883 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290398000884 DNA binding site [nucleotide binding] 290398000885 domain linker motif; other site 290398000886 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 290398000887 putative dimerization interface [polypeptide binding]; other site 290398000888 putative ligand binding site [chemical binding]; other site 290398000889 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 290398000890 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 290398000891 dimerization interface [polypeptide binding]; other site 290398000892 ligand binding site [chemical binding]; other site 290398000893 NADP binding site [chemical binding]; other site 290398000894 catalytic site [active] 290398000895 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 290398000896 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290398000897 substrate binding site [chemical binding]; other site 290398000898 ATP binding site [chemical binding]; other site 290398000899 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290398000900 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290398000901 DNA binding site [nucleotide binding] 290398000902 domain linker motif; other site 290398000903 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 290398000904 putative dimerization interface [polypeptide binding]; other site 290398000905 putative ligand binding site [chemical binding]; other site 290398000906 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398000907 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398000908 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 290398000909 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290398000910 NAD(P) binding site [chemical binding]; other site 290398000911 catalytic residues [active] 290398000912 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 290398000913 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 290398000914 substrate binding site [chemical binding]; other site 290398000915 oxyanion hole (OAH) forming residues; other site 290398000916 trimer interface [polypeptide binding]; other site 290398000917 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290398000918 MarR family; Region: MarR_2; pfam12802 290398000919 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398000920 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398000921 hypothetical protein; Provisional; Region: PRK00872 290398000922 DctM-like transporters; Region: DctM; pfam06808 290398000923 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398000924 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290398000925 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290398000926 MarR family; Region: MarR_2; pfam12802 290398000927 feruloyl-CoA synthase; Reviewed; Region: PRK08180 290398000928 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 290398000929 acyl-activating enzyme (AAE) consensus motif; other site 290398000930 putative AMP binding site [chemical binding]; other site 290398000931 putative active site [active] 290398000932 putative CoA binding site [chemical binding]; other site 290398000933 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290398000934 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290398000935 Porin subfamily; Region: Porin_2; pfam02530 290398000936 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290398000937 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398000938 motif II; other site 290398000939 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 290398000940 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290398000941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398000942 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 290398000943 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 290398000944 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 290398000945 dimer interface [polypeptide binding]; other site 290398000946 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 290398000947 active site 290398000948 Fe binding site [ion binding]; other site 290398000949 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 290398000950 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 290398000951 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 290398000952 shikimate binding site; other site 290398000953 NAD(P) binding site [chemical binding]; other site 290398000954 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 290398000955 Dehydroquinase class II; Region: DHquinase_II; pfam01220 290398000956 trimer interface [polypeptide binding]; other site 290398000957 active site 290398000958 dimer interface [polypeptide binding]; other site 290398000959 Predicted permeases [General function prediction only]; Region: COG0679 290398000960 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290398000961 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 290398000962 Bacterial transcriptional regulator; Region: IclR; pfam01614 290398000963 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 290398000964 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 290398000965 Bacterial transcriptional regulator; Region: IclR; pfam01614 290398000966 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 290398000967 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 290398000968 tetramer interface [polypeptide binding]; other site 290398000969 active site 290398000970 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 290398000971 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 290398000972 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 290398000973 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 290398000974 dimer interface [polypeptide binding]; other site 290398000975 active site 290398000976 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398000977 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 290398000978 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398000979 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290398000980 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398000981 DctM-like transporters; Region: DctM; pfam06808 290398000982 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398000983 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398000984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398000985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398000986 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 290398000987 substrate binding pocket [chemical binding]; other site 290398000988 dimerization interface [polypeptide binding]; other site 290398000989 benzoylformate decarboxylase; Reviewed; Region: PRK07092 290398000990 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290398000991 PYR/PP interface [polypeptide binding]; other site 290398000992 dimer interface [polypeptide binding]; other site 290398000993 TPP binding site [chemical binding]; other site 290398000994 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290398000995 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 290398000996 TPP-binding site [chemical binding]; other site 290398000997 dimer interface [polypeptide binding]; other site 290398000998 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398000999 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 290398001000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398001001 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398001002 dimerization interface [polypeptide binding]; other site 290398001003 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 290398001004 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 290398001005 active site 290398001006 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 290398001007 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 290398001008 heterodimer interface [polypeptide binding]; other site 290398001009 active site 290398001010 PAAR motif; Region: PAAR_motif; pfam05488 290398001011 GAF domain; Region: GAF; pfam01590 290398001012 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290398001013 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 290398001014 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398001015 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 290398001016 putative ADP-ribose binding site [chemical binding]; other site 290398001017 putative active site [active] 290398001018 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 290398001019 tetramer interface [polypeptide binding]; other site 290398001020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398001021 catalytic residue [active] 290398001022 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 290398001023 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290398001024 putative catalytic residue [active] 290398001025 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398001026 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290398001027 putative substrate translocation pore; other site 290398001028 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 290398001029 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 290398001030 putative active site [active] 290398001031 Fe(II) binding site [ion binding]; other site 290398001032 putative dimer interface [polypeptide binding]; other site 290398001033 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 290398001034 putative dimer interface [polypeptide binding]; other site 290398001035 putative N- and C-terminal domain interface [polypeptide binding]; other site 290398001036 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 290398001037 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 290398001038 putative active site [active] 290398001039 Fe(II) binding site [ion binding]; other site 290398001040 putative dimer interface [polypeptide binding]; other site 290398001041 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 290398001042 putative dimer interface [polypeptide binding]; other site 290398001043 putative tetramer interface [polypeptide binding]; other site 290398001044 putative active site [active] 290398001045 SnoaL-like domain; Region: SnoaL_4; pfam13577 290398001046 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 290398001047 TAP-like protein; Region: Abhydrolase_4; pfam08386 290398001048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 290398001049 hypothetical protein; Provisional; Region: PRK09262 290398001050 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 290398001051 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398001052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398001053 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 290398001054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398001055 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398001056 dimerization interface [polypeptide binding]; other site 290398001057 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398001058 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290398001059 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398001060 DctM-like transporters; Region: DctM; pfam06808 290398001061 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 290398001062 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 290398001063 NAD binding site [chemical binding]; other site 290398001064 catalytic Zn binding site [ion binding]; other site 290398001065 structural Zn binding site [ion binding]; other site 290398001066 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290398001067 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 290398001068 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 290398001069 hydrophobic ligand binding site; other site 290398001070 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 290398001071 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 290398001072 FMN-binding pocket [chemical binding]; other site 290398001073 flavin binding motif; other site 290398001074 phosphate binding motif [ion binding]; other site 290398001075 beta-alpha-beta structure motif; other site 290398001076 NAD binding pocket [chemical binding]; other site 290398001077 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398001078 catalytic loop [active] 290398001079 iron binding site [ion binding]; other site 290398001080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398001081 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398001082 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 290398001083 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398001084 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398001085 dimerization interface [polypeptide binding]; other site 290398001086 hypothetical protein; Provisional; Region: PRK06126 290398001087 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290398001088 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290398001089 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290398001090 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 290398001091 Bacterial transcriptional regulator; Region: IclR; pfam01614 290398001092 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290398001093 DctM-like transporters; Region: DctM; pfam06808 290398001094 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290398001095 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 290398001096 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 290398001097 FMN-binding pocket [chemical binding]; other site 290398001098 flavin binding motif; other site 290398001099 phosphate binding motif [ion binding]; other site 290398001100 beta-alpha-beta structure motif; other site 290398001101 NAD binding pocket [chemical binding]; other site 290398001102 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398001103 catalytic loop [active] 290398001104 iron binding site [ion binding]; other site 290398001105 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290398001106 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 290398001107 iron-sulfur cluster [ion binding]; other site 290398001108 [2Fe-2S] cluster binding site [ion binding]; other site 290398001109 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 290398001110 alpha subunit interface [polypeptide binding]; other site 290398001111 active site 290398001112 substrate binding site [chemical binding]; other site 290398001113 Fe binding site [ion binding]; other site 290398001114 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 290398001115 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398001116 DNA-binding site [nucleotide binding]; DNA binding site 290398001117 FCD domain; Region: FCD; pfam07729 290398001118 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 290398001119 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398001120 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 290398001121 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290398001122 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 290398001123 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290398001124 NAD(P) binding site [chemical binding]; other site 290398001125 catalytic residues [active] 290398001126 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 290398001127 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 290398001128 catalytic Zn binding site [ion binding]; other site 290398001129 NAD binding site [chemical binding]; other site 290398001130 structural Zn binding site [ion binding]; other site 290398001131 Predicted membrane protein [Function unknown]; Region: COG2860 290398001132 UPF0126 domain; Region: UPF0126; pfam03458 290398001133 UPF0126 domain; Region: UPF0126; pfam03458 290398001134 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 290398001135 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290398001136 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 290398001137 NAD(P) binding site [chemical binding]; other site 290398001138 catalytic residues [active] 290398001139 transketolase; Reviewed; Region: PRK12753 290398001140 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 290398001141 TPP-binding site [chemical binding]; other site 290398001142 dimer interface [polypeptide binding]; other site 290398001143 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 290398001144 PYR/PP interface [polypeptide binding]; other site 290398001145 dimer interface [polypeptide binding]; other site 290398001146 TPP binding site [chemical binding]; other site 290398001147 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290398001148 transaldolase-like protein; Provisional; Region: PTZ00411 290398001149 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 290398001150 active site 290398001151 dimer interface [polypeptide binding]; other site 290398001152 catalytic residue [active] 290398001153 DAK2 domain; Region: Dak2; pfam02734 290398001154 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 290398001155 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 290398001156 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 290398001157 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 290398001158 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 290398001159 DNA binding residues [nucleotide binding] 290398001160 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 290398001161 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290398001162 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 290398001163 putative NAD(P) binding site [chemical binding]; other site 290398001164 catalytic Zn binding site [ion binding]; other site 290398001165 structural Zn binding site [ion binding]; other site 290398001166 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 290398001167 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290398001168 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290398001169 Walker A/P-loop; other site 290398001170 ATP binding site [chemical binding]; other site 290398001171 Q-loop/lid; other site 290398001172 ABC transporter signature motif; other site 290398001173 Walker B; other site 290398001174 D-loop; other site 290398001175 H-loop/switch region; other site 290398001176 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290398001177 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290398001178 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290398001179 TM-ABC transporter signature motif; other site 290398001180 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 290398001181 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 290398001182 ligand binding site [chemical binding]; other site 290398001183 dimerization interface [polypeptide binding]; other site 290398001184 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 290398001185 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398001186 putative substrate translocation pore; other site 290398001187 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398001188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398001189 DNA-binding site [nucleotide binding]; DNA binding site 290398001190 FCD domain; Region: FCD; pfam07729 290398001191 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 290398001192 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 290398001193 putative active site pocket [active] 290398001194 metal binding site [ion binding]; metal-binding site 290398001195 RbsD / FucU transport protein family; Region: RbsD_FucU; pfam05025 290398001196 Amidohydrolase; Region: Amidohydro_2; pfam04909 290398001197 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 290398001198 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398001199 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398001200 active site 290398001201 catalytic tetrad [active] 290398001202 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 290398001203 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 290398001204 intersubunit interface [polypeptide binding]; other site 290398001205 active site 290398001206 zinc binding site [ion binding]; other site 290398001207 Na+ binding site [ion binding]; other site 290398001208 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 290398001209 Phosphoglycerate kinase; Region: PGK; pfam00162 290398001210 substrate binding site [chemical binding]; other site 290398001211 hinge regions; other site 290398001212 ADP binding site [chemical binding]; other site 290398001213 catalytic site [active] 290398001214 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 290398001215 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 290398001216 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290398001217 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 290398001218 LrgA family; Region: LrgA; pfam03788 290398001219 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 290398001220 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 290398001221 putative active site; other site 290398001222 catalytic residue [active] 290398001223 hypothetical protein; Provisional; Region: PRK09126 290398001224 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290398001225 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 290398001226 catalytic residues [active] 290398001227 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 290398001228 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 290398001229 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 290398001230 Class I ribonucleotide reductase; Region: RNR_I; cd01679 290398001231 active site 290398001232 dimer interface [polypeptide binding]; other site 290398001233 catalytic residues [active] 290398001234 effector binding site; other site 290398001235 R2 peptide binding site; other site 290398001236 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 290398001237 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 290398001238 dimer interface [polypeptide binding]; other site 290398001239 putative radical transfer pathway; other site 290398001240 diiron center [ion binding]; other site 290398001241 tyrosyl radical; other site 290398001242 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290398001243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398001244 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 290398001245 dimerization interface [polypeptide binding]; other site 290398001246 substrate binding pocket [chemical binding]; other site 290398001247 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398001248 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398001249 active site 290398001250 catalytic tetrad [active] 290398001251 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398001252 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398001253 active site 290398001254 catalytic tetrad [active] 290398001255 transketolase; Reviewed; Region: PRK12753 290398001256 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 290398001257 TPP-binding site [chemical binding]; other site 290398001258 dimer interface [polypeptide binding]; other site 290398001259 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 290398001260 PYR/PP interface [polypeptide binding]; other site 290398001261 dimer interface [polypeptide binding]; other site 290398001262 TPP binding site [chemical binding]; other site 290398001263 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290398001264 S-adenosylmethionine synthetase; Validated; Region: PRK05250 290398001265 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 290398001266 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 290398001267 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 290398001268 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290398001269 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 290398001270 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 290398001271 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290398001272 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398001273 non-specific DNA binding site [nucleotide binding]; other site 290398001274 salt bridge; other site 290398001275 sequence-specific DNA binding site [nucleotide binding]; other site 290398001276 AzlC protein; Region: AzlC; pfam03591 290398001277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398001278 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290398001279 Membrane transport protein; Region: Mem_trans; cl09117 290398001280 aromatic amino acid exporter; Provisional; Region: PRK11689 290398001281 EamA-like transporter family; Region: EamA; pfam00892 290398001282 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 290398001283 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 290398001284 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 290398001285 FAD binding site [chemical binding]; other site 290398001286 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 290398001287 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 290398001288 E-class dimer interface [polypeptide binding]; other site 290398001289 P-class dimer interface [polypeptide binding]; other site 290398001290 active site 290398001291 Cu2+ binding site [ion binding]; other site 290398001292 Zn2+ binding site [ion binding]; other site 290398001293 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 290398001294 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 290398001295 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 290398001296 active site 290398001297 Zn binding site [ion binding]; other site 290398001298 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 290398001299 Na2 binding site [ion binding]; other site 290398001300 putative substrate binding site 1 [chemical binding]; other site 290398001301 Na binding site 1 [ion binding]; other site 290398001302 putative substrate binding site 2 [chemical binding]; other site 290398001303 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 290398001304 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 290398001305 trimer interface [polypeptide binding]; other site 290398001306 putative metal binding site [ion binding]; other site 290398001307 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398001308 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398001309 DNA-binding site [nucleotide binding]; DNA binding site 290398001310 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290398001311 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 290398001312 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 290398001313 active site 290398001314 substrate binding site [chemical binding]; other site 290398001315 FMN binding site [chemical binding]; other site 290398001316 putative catalytic residues [active] 290398001317 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290398001318 FAD binding domain; Region: FAD_binding_4; pfam01565 290398001319 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 290398001320 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 290398001321 Biotin operon repressor [Transcription]; Region: BirA; COG1654 290398001322 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 290398001323 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 290398001324 Type III pantothenate kinase; Region: Pan_kinase; cl17198 290398001325 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 290398001326 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 290398001327 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 290398001328 putative homodimer interface [polypeptide binding]; other site 290398001329 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 290398001330 heterodimer interface [polypeptide binding]; other site 290398001331 homodimer interface [polypeptide binding]; other site 290398001332 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 290398001333 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 290398001334 23S rRNA interface [nucleotide binding]; other site 290398001335 L7/L12 interface [polypeptide binding]; other site 290398001336 putative thiostrepton binding site; other site 290398001337 L25 interface [polypeptide binding]; other site 290398001338 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 290398001339 mRNA/rRNA interface [nucleotide binding]; other site 290398001340 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 290398001341 23S rRNA interface [nucleotide binding]; other site 290398001342 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 290398001343 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 290398001344 peripheral dimer interface [polypeptide binding]; other site 290398001345 core dimer interface [polypeptide binding]; other site 290398001346 L10 interface [polypeptide binding]; other site 290398001347 L11 interface [polypeptide binding]; other site 290398001348 putative EF-Tu interaction site [polypeptide binding]; other site 290398001349 putative EF-G interaction site [polypeptide binding]; other site 290398001350 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 290398001351 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 290398001352 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 290398001353 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 290398001354 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 290398001355 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 290398001356 RPB3 interaction site [polypeptide binding]; other site 290398001357 RPB1 interaction site [polypeptide binding]; other site 290398001358 RPB11 interaction site [polypeptide binding]; other site 290398001359 RPB10 interaction site [polypeptide binding]; other site 290398001360 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 290398001361 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 290398001362 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 290398001363 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 290398001364 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 290398001365 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 290398001366 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 290398001367 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 290398001368 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 290398001369 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 290398001370 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 290398001371 DNA binding site [nucleotide binding] 290398001372 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 290398001373 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 290398001374 S17 interaction site [polypeptide binding]; other site 290398001375 S8 interaction site; other site 290398001376 16S rRNA interaction site [nucleotide binding]; other site 290398001377 streptomycin interaction site [chemical binding]; other site 290398001378 23S rRNA interaction site [nucleotide binding]; other site 290398001379 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 290398001380 30S ribosomal protein S7; Validated; Region: PRK05302 290398001381 elongation factor G; Reviewed; Region: PRK00007 290398001382 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 290398001383 G1 box; other site 290398001384 putative GEF interaction site [polypeptide binding]; other site 290398001385 GTP/Mg2+ binding site [chemical binding]; other site 290398001386 Switch I region; other site 290398001387 G2 box; other site 290398001388 G3 box; other site 290398001389 Switch II region; other site 290398001390 G4 box; other site 290398001391 G5 box; other site 290398001392 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 290398001393 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 290398001394 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 290398001395 elongation factor Tu; Reviewed; Region: PRK00049 290398001396 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 290398001397 G1 box; other site 290398001398 GEF interaction site [polypeptide binding]; other site 290398001399 GTP/Mg2+ binding site [chemical binding]; other site 290398001400 Switch I region; other site 290398001401 G2 box; other site 290398001402 G3 box; other site 290398001403 Switch II region; other site 290398001404 G4 box; other site 290398001405 G5 box; other site 290398001406 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 290398001407 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 290398001408 Antibiotic Binding Site [chemical binding]; other site 290398001409 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 290398001410 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 290398001411 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 290398001412 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 290398001413 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 290398001414 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 290398001415 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 290398001416 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 290398001417 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 290398001418 putative translocon binding site; other site 290398001419 protein-rRNA interface [nucleotide binding]; other site 290398001420 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 290398001421 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 290398001422 G-X-X-G motif; other site 290398001423 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 290398001424 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 290398001425 23S rRNA interface [nucleotide binding]; other site 290398001426 5S rRNA interface [nucleotide binding]; other site 290398001427 putative antibiotic binding site [chemical binding]; other site 290398001428 L25 interface [polypeptide binding]; other site 290398001429 L27 interface [polypeptide binding]; other site 290398001430 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 290398001431 23S rRNA interface [nucleotide binding]; other site 290398001432 putative translocon interaction site; other site 290398001433 signal recognition particle (SRP54) interaction site; other site 290398001434 L23 interface [polypeptide binding]; other site 290398001435 trigger factor interaction site; other site 290398001436 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 290398001437 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 290398001438 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 290398001439 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 290398001440 RNA binding site [nucleotide binding]; other site 290398001441 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 290398001442 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 290398001443 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 290398001444 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 290398001445 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 290398001446 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 290398001447 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 290398001448 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 290398001449 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 290398001450 5S rRNA interface [nucleotide binding]; other site 290398001451 23S rRNA interface [nucleotide binding]; other site 290398001452 L5 interface [polypeptide binding]; other site 290398001453 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 290398001454 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 290398001455 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 290398001456 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 290398001457 23S rRNA binding site [nucleotide binding]; other site 290398001458 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 290398001459 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 290398001460 SecY translocase; Region: SecY; pfam00344 290398001461 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 290398001462 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 290398001463 30S ribosomal protein S13; Region: bact_S13; TIGR03631 290398001464 30S ribosomal protein S11; Validated; Region: PRK05309 290398001465 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 290398001466 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 290398001467 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 290398001468 RNA binding surface [nucleotide binding]; other site 290398001469 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 290398001470 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 290398001471 alphaNTD homodimer interface [polypeptide binding]; other site 290398001472 alphaNTD - beta interaction site [polypeptide binding]; other site 290398001473 alphaNTD - beta' interaction site [polypeptide binding]; other site 290398001474 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 290398001475 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 290398001476 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 290398001477 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290398001478 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290398001479 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 290398001480 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398001481 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290398001482 putative substrate translocation pore; other site 290398001483 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 290398001484 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 290398001485 dimer interface [polypeptide binding]; other site 290398001486 ssDNA binding site [nucleotide binding]; other site 290398001487 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290398001488 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 290398001489 GAF domain; Region: GAF; cl17456 290398001490 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398001491 Walker A motif; other site 290398001492 ATP binding site [chemical binding]; other site 290398001493 Walker B motif; other site 290398001494 arginine finger; other site 290398001495 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 290398001496 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 290398001497 heme-binding site [chemical binding]; other site 290398001498 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 290398001499 FAD binding pocket [chemical binding]; other site 290398001500 FAD binding motif [chemical binding]; other site 290398001501 phosphate binding motif [ion binding]; other site 290398001502 beta-alpha-beta structure motif; other site 290398001503 NAD binding pocket [chemical binding]; other site 290398001504 Heme binding pocket [chemical binding]; other site 290398001505 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 290398001506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398001507 active site 290398001508 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290398001509 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290398001510 putative acyl-acceptor binding pocket; other site 290398001511 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 290398001512 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 290398001513 dimer interface [polypeptide binding]; other site 290398001514 active site 290398001515 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 290398001516 active site 1 [active] 290398001517 dimer interface [polypeptide binding]; other site 290398001518 active site 2 [active] 290398001519 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398001520 PAS domain; Region: PAS_9; pfam13426 290398001521 putative active site [active] 290398001522 heme pocket [chemical binding]; other site 290398001523 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398001524 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398001525 metal binding site [ion binding]; metal-binding site 290398001526 active site 290398001527 I-site; other site 290398001528 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398001529 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 290398001530 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 290398001531 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398001532 S-adenosylmethionine binding site [chemical binding]; other site 290398001533 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 290398001534 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 290398001535 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290398001536 short chain dehydrogenase; Provisional; Region: PRK06101 290398001537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398001538 NAD(P) binding site [chemical binding]; other site 290398001539 active site 290398001540 SnoaL-like domain; Region: SnoaL_2; pfam12680 290398001541 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 290398001542 DNA photolyase; Region: DNA_photolyase; pfam00875 290398001543 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290398001544 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 290398001545 DNA binding residues [nucleotide binding] 290398001546 B12 binding domain; Region: B12-binding_2; pfam02607 290398001547 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 290398001548 putative active site [active] 290398001549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398001550 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 290398001551 NAD(P) binding site [chemical binding]; other site 290398001552 active site 290398001553 ATP-dependent helicase HepA; Validated; Region: PRK04914 290398001554 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398001555 ATP binding site [chemical binding]; other site 290398001556 putative Mg++ binding site [ion binding]; other site 290398001557 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398001558 nucleotide binding region [chemical binding]; other site 290398001559 ATP-binding site [chemical binding]; other site 290398001560 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 290398001561 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290398001562 catalytic residues [active] 290398001563 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290398001564 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290398001565 substrate binding pocket [chemical binding]; other site 290398001566 chain length determination region; other site 290398001567 substrate-Mg2+ binding site; other site 290398001568 catalytic residues [active] 290398001569 aspartate-rich region 1; other site 290398001570 active site lid residues [active] 290398001571 aspartate-rich region 2; other site 290398001572 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 290398001573 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 290398001574 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 290398001575 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 290398001576 GTP1/OBG; Region: GTP1_OBG; pfam01018 290398001577 Obg GTPase; Region: Obg; cd01898 290398001578 G1 box; other site 290398001579 GTP/Mg2+ binding site [chemical binding]; other site 290398001580 Switch I region; other site 290398001581 G2 box; other site 290398001582 G3 box; other site 290398001583 Switch II region; other site 290398001584 G4 box; other site 290398001585 G5 box; other site 290398001586 gamma-glutamyl kinase; Provisional; Region: PRK05429 290398001587 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 290398001588 nucleotide binding site [chemical binding]; other site 290398001589 homotetrameric interface [polypeptide binding]; other site 290398001590 putative phosphate binding site [ion binding]; other site 290398001591 putative allosteric binding site; other site 290398001592 PUA domain; Region: PUA; pfam01472 290398001593 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 290398001594 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 290398001595 MviN-like protein; Region: MVIN; pfam03023 290398001596 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 290398001597 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 290398001598 active site 290398001599 Riboflavin kinase; Region: Flavokinase; pfam01687 290398001600 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 290398001601 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290398001602 active site 290398001603 HIGH motif; other site 290398001604 nucleotide binding site [chemical binding]; other site 290398001605 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 290398001606 active site 290398001607 KMSKS motif; other site 290398001608 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 290398001609 tRNA binding surface [nucleotide binding]; other site 290398001610 anticodon binding site; other site 290398001611 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 290398001612 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 290398001613 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 290398001614 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 290398001615 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 290398001616 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 290398001617 Type II transport protein GspH; Region: GspH; pfam12019 290398001618 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 290398001619 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 290398001620 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 290398001621 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 290398001622 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 290398001623 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 290398001624 Type II transport protein GspH; Region: GspH; pfam12019 290398001625 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 290398001626 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 290398001627 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 290398001628 PilX N-terminal; Region: PilX_N; pfam14341 290398001629 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 290398001630 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290398001631 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 290398001632 NAD synthetase; Provisional; Region: PRK13981 290398001633 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 290398001634 multimer interface [polypeptide binding]; other site 290398001635 active site 290398001636 catalytic triad [active] 290398001637 protein interface 1 [polypeptide binding]; other site 290398001638 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 290398001639 homodimer interface [polypeptide binding]; other site 290398001640 NAD binding pocket [chemical binding]; other site 290398001641 ATP binding pocket [chemical binding]; other site 290398001642 Mg binding site [ion binding]; other site 290398001643 active-site loop [active] 290398001644 Outer membrane lipoprotein; Region: YfiO; pfam13525 290398001645 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 290398001646 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 290398001647 RNA binding surface [nucleotide binding]; other site 290398001648 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290398001649 active site 290398001650 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 290398001651 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 290398001652 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 290398001653 Clp amino terminal domain; Region: Clp_N; pfam02861 290398001654 Clp amino terminal domain; Region: Clp_N; pfam02861 290398001655 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398001656 Walker A motif; other site 290398001657 ATP binding site [chemical binding]; other site 290398001658 Walker B motif; other site 290398001659 arginine finger; other site 290398001660 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398001661 Walker A motif; other site 290398001662 ATP binding site [chemical binding]; other site 290398001663 Walker B motif; other site 290398001664 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 290398001665 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 290398001666 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398001667 putative substrate translocation pore; other site 290398001668 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 290398001669 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290398001670 PYR/PP interface [polypeptide binding]; other site 290398001671 dimer interface [polypeptide binding]; other site 290398001672 TPP binding site [chemical binding]; other site 290398001673 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290398001674 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 290398001675 TPP-binding site [chemical binding]; other site 290398001676 dimer interface [polypeptide binding]; other site 290398001677 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 290398001678 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 290398001679 putative valine binding site [chemical binding]; other site 290398001680 dimer interface [polypeptide binding]; other site 290398001681 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 290398001682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398001683 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 290398001684 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 290398001685 putative dimerization interface [polypeptide binding]; other site 290398001686 ketol-acid reductoisomerase; Provisional; Region: PRK05479 290398001687 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 290398001688 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 290398001689 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 290398001690 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 290398001691 flagellar capping protein; Reviewed; Region: fliD; PRK08032 290398001692 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 290398001693 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 290398001694 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 290398001695 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398001696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398001697 homodimer interface [polypeptide binding]; other site 290398001698 catalytic residue [active] 290398001699 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 290398001700 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 290398001701 FMN binding site [chemical binding]; other site 290398001702 active site 290398001703 substrate binding site [chemical binding]; other site 290398001704 catalytic residue [active] 290398001705 NlpE N-terminal domain; Region: NlpE; pfam04170 290398001706 DNA repair protein RadA; Provisional; Region: PRK11823 290398001707 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 290398001708 Walker A motif/ATP binding site; other site 290398001709 ATP binding site [chemical binding]; other site 290398001710 Walker B motif; other site 290398001711 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 290398001712 selenophosphate synthetase; Provisional; Region: PRK00943 290398001713 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 290398001714 dimerization interface [polypeptide binding]; other site 290398001715 putative ATP binding site [chemical binding]; other site 290398001716 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 290398001717 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 290398001718 active site residue [active] 290398001719 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 290398001720 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 290398001721 catalytic triad [active] 290398001722 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 290398001723 active site 290398001724 DNA binding site [nucleotide binding] 290398001725 Protein of unknown function (DUF416); Region: DUF416; pfam04222 290398001726 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 290398001727 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 290398001728 substrate binding site [chemical binding]; other site 290398001729 glutamase interaction surface [polypeptide binding]; other site 290398001730 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 290398001731 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 290398001732 catalytic residues [active] 290398001733 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 290398001734 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 290398001735 putative active site [active] 290398001736 oxyanion strand; other site 290398001737 catalytic triad [active] 290398001738 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 290398001739 putative active site pocket [active] 290398001740 4-fold oligomerization interface [polypeptide binding]; other site 290398001741 metal binding residues [ion binding]; metal-binding site 290398001742 3-fold/trimer interface [polypeptide binding]; other site 290398001743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398001744 Coenzyme A binding pocket [chemical binding]; other site 290398001745 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 290398001746 adenine DNA glycosylase; Provisional; Region: PRK10880 290398001747 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290398001748 minor groove reading motif; other site 290398001749 helix-hairpin-helix signature motif; other site 290398001750 substrate binding pocket [chemical binding]; other site 290398001751 active site 290398001752 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 290398001753 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 290398001754 DNA binding and oxoG recognition site [nucleotide binding] 290398001755 oxidative damage protection protein; Provisional; Region: PRK05408 290398001756 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 290398001757 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 290398001758 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 290398001759 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 290398001760 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398001761 catalytic loop [active] 290398001762 iron binding site [ion binding]; other site 290398001763 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290398001764 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 290398001765 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 290398001766 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 290398001767 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290398001768 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290398001769 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 290398001770 Ligand binding site; other site 290398001771 metal-binding site 290398001772 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 290398001773 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 290398001774 XdhC Rossmann domain; Region: XdhC_C; pfam13478 290398001775 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290398001776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398001777 dimer interface [polypeptide binding]; other site 290398001778 conserved gate region; other site 290398001779 putative PBP binding loops; other site 290398001780 ABC-ATPase subunit interface; other site 290398001781 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290398001782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398001783 dimer interface [polypeptide binding]; other site 290398001784 conserved gate region; other site 290398001785 putative PBP binding loops; other site 290398001786 ABC-ATPase subunit interface; other site 290398001787 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 290398001788 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398001789 substrate binding pocket [chemical binding]; other site 290398001790 membrane-bound complex binding site; other site 290398001791 hinge residues; other site 290398001792 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290398001793 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290398001794 Walker A/P-loop; other site 290398001795 ATP binding site [chemical binding]; other site 290398001796 Q-loop/lid; other site 290398001797 ABC transporter signature motif; other site 290398001798 Walker B; other site 290398001799 D-loop; other site 290398001800 H-loop/switch region; other site 290398001801 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 290398001802 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398001803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398001804 homodimer interface [polypeptide binding]; other site 290398001805 catalytic residue [active] 290398001806 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290398001807 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 290398001808 hypothetical protein; Provisional; Region: PRK07524 290398001809 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290398001810 PYR/PP interface [polypeptide binding]; other site 290398001811 dimer interface [polypeptide binding]; other site 290398001812 TPP binding site [chemical binding]; other site 290398001813 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290398001814 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 290398001815 TPP-binding site [chemical binding]; other site 290398001816 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 290398001817 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 290398001818 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 290398001819 substrate binding pocket [chemical binding]; other site 290398001820 active site 290398001821 iron coordination sites [ion binding]; other site 290398001822 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 290398001823 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 290398001824 conserved cys residue [active] 290398001825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398001826 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 290398001827 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290398001828 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 290398001829 arginine decarboxylase; Provisional; Region: PRK05354 290398001830 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 290398001831 dimer interface [polypeptide binding]; other site 290398001832 active site 290398001833 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290398001834 catalytic residues [active] 290398001835 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 290398001836 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 290398001837 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 290398001838 putative active site [active] 290398001839 putative substrate binding site [chemical binding]; other site 290398001840 ATP binding site [chemical binding]; other site 290398001841 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 290398001842 DNA polymerase I; Provisional; Region: PRK05755 290398001843 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 290398001844 active site 290398001845 metal binding site 1 [ion binding]; metal-binding site 290398001846 putative 5' ssDNA interaction site; other site 290398001847 metal binding site 3; metal-binding site 290398001848 metal binding site 2 [ion binding]; metal-binding site 290398001849 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 290398001850 putative DNA binding site [nucleotide binding]; other site 290398001851 putative metal binding site [ion binding]; other site 290398001852 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 290398001853 active site 290398001854 catalytic site [active] 290398001855 substrate binding site [chemical binding]; other site 290398001856 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 290398001857 active site 290398001858 DNA binding site [nucleotide binding] 290398001859 catalytic site [active] 290398001860 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290398001861 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 290398001862 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290398001863 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 290398001864 Walker A/P-loop; other site 290398001865 ATP binding site [chemical binding]; other site 290398001866 Q-loop/lid; other site 290398001867 ABC transporter signature motif; other site 290398001868 Walker B; other site 290398001869 D-loop; other site 290398001870 H-loop/switch region; other site 290398001871 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 290398001872 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398001873 dimer interface [polypeptide binding]; other site 290398001874 conserved gate region; other site 290398001875 putative PBP binding loops; other site 290398001876 ABC-ATPase subunit interface; other site 290398001877 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 290398001878 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 290398001879 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290398001880 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398001881 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 290398001882 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398001883 putative substrate translocation pore; other site 290398001884 SlyX; Region: SlyX; pfam04102 290398001885 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290398001886 DNA-binding site [nucleotide binding]; DNA binding site 290398001887 RNA-binding motif; other site 290398001888 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 290398001889 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 290398001890 metal binding site [ion binding]; metal-binding site 290398001891 dimer interface [polypeptide binding]; other site 290398001892 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 290398001893 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 290398001894 putative trimer interface [polypeptide binding]; other site 290398001895 putative CoA binding site [chemical binding]; other site 290398001896 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 290398001897 ArsC family; Region: ArsC; pfam03960 290398001898 putative catalytic residues [active] 290398001899 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 290398001900 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398001901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398001902 homodimer interface [polypeptide binding]; other site 290398001903 catalytic residue [active] 290398001904 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 290398001905 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290398001906 metal binding triad; other site 290398001907 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 290398001908 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290398001909 Zn2+ binding site [ion binding]; other site 290398001910 Mg2+ binding site [ion binding]; other site 290398001911 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 290398001912 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 290398001913 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 290398001914 active site 290398001915 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 290398001916 rRNA interaction site [nucleotide binding]; other site 290398001917 S8 interaction site; other site 290398001918 putative laminin-1 binding site; other site 290398001919 elongation factor Ts; Provisional; Region: tsf; PRK09377 290398001920 UBA/TS-N domain; Region: UBA; pfam00627 290398001921 Elongation factor TS; Region: EF_TS; pfam00889 290398001922 Elongation factor TS; Region: EF_TS; pfam00889 290398001923 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 290398001924 putative nucleotide binding site [chemical binding]; other site 290398001925 uridine monophosphate binding site [chemical binding]; other site 290398001926 homohexameric interface [polypeptide binding]; other site 290398001927 ribosome recycling factor; Reviewed; Region: frr; PRK00083 290398001928 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 290398001929 hinge region; other site 290398001930 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 290398001931 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 290398001932 catalytic residue [active] 290398001933 putative FPP diphosphate binding site; other site 290398001934 putative FPP binding hydrophobic cleft; other site 290398001935 dimer interface [polypeptide binding]; other site 290398001936 putative IPP diphosphate binding site; other site 290398001937 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 290398001938 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 290398001939 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 290398001940 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 290398001941 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 290398001942 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 290398001943 zinc metallopeptidase RseP; Provisional; Region: PRK10779 290398001944 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 290398001945 active site 290398001946 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 290398001947 protein binding site [polypeptide binding]; other site 290398001948 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 290398001949 protein binding site [polypeptide binding]; other site 290398001950 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 290398001951 putative substrate binding region [chemical binding]; other site 290398001952 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 290398001953 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290398001954 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290398001955 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290398001956 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290398001957 Surface antigen; Region: Bac_surface_Ag; pfam01103 290398001958 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 290398001959 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 290398001960 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 290398001961 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 290398001962 trimer interface [polypeptide binding]; other site 290398001963 active site 290398001964 UDP-GlcNAc binding site [chemical binding]; other site 290398001965 lipid binding site [chemical binding]; lipid-binding site 290398001966 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 290398001967 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 290398001968 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 290398001969 active site 290398001970 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 290398001971 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 290398001972 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 290398001973 RNA/DNA hybrid binding site [nucleotide binding]; other site 290398001974 active site 290398001975 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 290398001976 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 290398001977 putative active site [active] 290398001978 putative PHP Thumb interface [polypeptide binding]; other site 290398001979 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 290398001980 generic binding surface II; other site 290398001981 generic binding surface I; other site 290398001982 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 290398001983 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 290398001984 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 290398001985 TilS substrate binding domain; Region: TilS; pfam09179 290398001986 TilS substrate C-terminal domain; Region: TilS_C; smart00977 290398001987 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 290398001988 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 290398001989 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 290398001990 catalytic residues [active] 290398001991 transcription termination factor Rho; Provisional; Region: rho; PRK09376 290398001992 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 290398001993 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 290398001994 RNA binding site [nucleotide binding]; other site 290398001995 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 290398001996 multimer interface [polypeptide binding]; other site 290398001997 Walker A motif; other site 290398001998 ATP binding site [chemical binding]; other site 290398001999 Walker B motif; other site 290398002000 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 290398002001 FMN reductase; Validated; Region: fre; PRK08051 290398002002 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 290398002003 FAD binding pocket [chemical binding]; other site 290398002004 FAD binding motif [chemical binding]; other site 290398002005 phosphate binding motif [ion binding]; other site 290398002006 beta-alpha-beta structure motif; other site 290398002007 NAD binding pocket [chemical binding]; other site 290398002008 dihydromonapterin reductase; Provisional; Region: PRK06483 290398002009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398002010 NAD(P) binding site [chemical binding]; other site 290398002011 active site 290398002012 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 290398002013 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 290398002014 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 290398002015 polyphosphate kinase; Provisional; Region: PRK05443 290398002016 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 290398002017 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 290398002018 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 290398002019 putative domain interface [polypeptide binding]; other site 290398002020 putative active site [active] 290398002021 catalytic site [active] 290398002022 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 290398002023 putative domain interface [polypeptide binding]; other site 290398002024 putative active site [active] 290398002025 catalytic site [active] 290398002026 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 290398002027 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 290398002028 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 290398002029 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 290398002030 metal binding site [ion binding]; metal-binding site 290398002031 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 290398002032 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 290398002033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 290398002034 SCP-2 sterol transfer family; Region: SCP2; pfam02036 290398002035 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 290398002036 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398002037 S-adenosylmethionine binding site [chemical binding]; other site 290398002038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 290398002039 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 290398002040 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398002041 Walker A motif; other site 290398002042 ATP binding site [chemical binding]; other site 290398002043 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 290398002044 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290398002045 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 290398002046 active site 290398002047 HslU subunit interaction site [polypeptide binding]; other site 290398002048 Sporulation related domain; Region: SPOR; pfam05036 290398002049 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 290398002050 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 290398002051 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 290398002052 active site 290398002053 HIGH motif; other site 290398002054 KMSK motif region; other site 290398002055 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 290398002056 tRNA binding surface [nucleotide binding]; other site 290398002057 anticodon binding site; other site 290398002058 primosome assembly protein PriA; Validated; Region: PRK05580 290398002059 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398002060 ATP binding site [chemical binding]; other site 290398002061 putative Mg++ binding site [ion binding]; other site 290398002062 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 290398002063 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 290398002064 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 290398002065 Malic enzyme, N-terminal domain; Region: malic; pfam00390 290398002066 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 290398002067 putative NAD(P) binding site [chemical binding]; other site 290398002068 Protein of unknown function, DUF481; Region: DUF481; pfam04338 290398002069 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 290398002070 Transglycosylase; Region: Transgly; pfam00912 290398002071 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290398002072 Competence protein A; Region: Competence_A; pfam11104 290398002073 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 290398002074 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 290398002075 Pilus assembly protein, PilO; Region: PilO; pfam04350 290398002076 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 290398002077 Pilus assembly protein, PilP; Region: PilP; pfam04351 290398002078 AMIN domain; Region: AMIN; pfam11741 290398002079 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 290398002080 Secretin and TonB N terminus short domain; Region: STN; pfam07660 290398002081 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 290398002082 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 290398002083 shikimate kinase; Reviewed; Region: aroK; PRK00131 290398002084 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 290398002085 ADP binding site [chemical binding]; other site 290398002086 magnesium binding site [ion binding]; other site 290398002087 putative shikimate binding site; other site 290398002088 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 290398002089 active site 290398002090 dimer interface [polypeptide binding]; other site 290398002091 metal binding site [ion binding]; metal-binding site 290398002092 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 290398002093 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 290398002094 active site 290398002095 dimer interface [polypeptide binding]; other site 290398002096 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 290398002097 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 290398002098 active site 290398002099 FMN binding site [chemical binding]; other site 290398002100 substrate binding site [chemical binding]; other site 290398002101 3Fe-4S cluster binding site [ion binding]; other site 290398002102 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 290398002103 domain interface; other site 290398002104 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 290398002105 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398002106 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398002107 CTP synthetase; Validated; Region: pyrG; PRK05380 290398002108 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 290398002109 Catalytic site [active] 290398002110 active site 290398002111 UTP binding site [chemical binding]; other site 290398002112 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 290398002113 active site 290398002114 putative oxyanion hole; other site 290398002115 catalytic triad [active] 290398002116 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 290398002117 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 290398002118 enolase; Provisional; Region: eno; PRK00077 290398002119 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 290398002120 dimer interface [polypeptide binding]; other site 290398002121 metal binding site [ion binding]; metal-binding site 290398002122 substrate binding pocket [chemical binding]; other site 290398002123 Ferredoxin [Energy production and conversion]; Region: COG1146 290398002124 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 290398002125 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 290398002126 MutS domain I; Region: MutS_I; pfam01624 290398002127 MutS domain II; Region: MutS_II; pfam05188 290398002128 MutS domain III; Region: MutS_III; pfam05192 290398002129 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 290398002130 Walker A/P-loop; other site 290398002131 ATP binding site [chemical binding]; other site 290398002132 Q-loop/lid; other site 290398002133 ABC transporter signature motif; other site 290398002134 Walker B; other site 290398002135 D-loop; other site 290398002136 H-loop/switch region; other site 290398002137 Competence-damaged protein; Region: CinA; pfam02464 290398002138 recombinase A; Provisional; Region: recA; PRK09354 290398002139 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 290398002140 hexamer interface [polypeptide binding]; other site 290398002141 Walker A motif; other site 290398002142 ATP binding site [chemical binding]; other site 290398002143 Walker B motif; other site 290398002144 recombination regulator RecX; Reviewed; Region: recX; PRK00117 290398002145 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 290398002146 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 290398002147 motif 1; other site 290398002148 active site 290398002149 motif 2; other site 290398002150 motif 3; other site 290398002151 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 290398002152 DHHA1 domain; Region: DHHA1; pfam02272 290398002153 aspartate kinase; Reviewed; Region: PRK06635 290398002154 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 290398002155 putative nucleotide binding site [chemical binding]; other site 290398002156 putative catalytic residues [active] 290398002157 putative Mg ion binding site [ion binding]; other site 290398002158 putative aspartate binding site [chemical binding]; other site 290398002159 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 290398002160 putative allosteric regulatory site; other site 290398002161 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 290398002162 putative allosteric regulatory residue; other site 290398002163 carbon storage regulator; Provisional; Region: PRK01712 290398002164 Predicted membrane protein [Function unknown]; Region: COG3212 290398002165 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 290398002166 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290398002167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398002168 active site 290398002169 phosphorylation site [posttranslational modification] 290398002170 intermolecular recognition site; other site 290398002171 dimerization interface [polypeptide binding]; other site 290398002172 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398002173 DNA binding site [nucleotide binding] 290398002174 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290398002175 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 290398002176 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398002177 ATP binding site [chemical binding]; other site 290398002178 Mg2+ binding site [ion binding]; other site 290398002179 G-X-G motif; other site 290398002180 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 290398002181 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290398002182 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 290398002183 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290398002184 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290398002185 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398002186 dimer interface [polypeptide binding]; other site 290398002187 conserved gate region; other site 290398002188 putative PBP binding loops; other site 290398002189 ABC-ATPase subunit interface; other site 290398002190 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290398002191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398002192 dimer interface [polypeptide binding]; other site 290398002193 conserved gate region; other site 290398002194 putative PBP binding loops; other site 290398002195 ABC-ATPase subunit interface; other site 290398002196 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290398002197 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290398002198 Walker A/P-loop; other site 290398002199 ATP binding site [chemical binding]; other site 290398002200 Q-loop/lid; other site 290398002201 ABC transporter signature motif; other site 290398002202 Walker B; other site 290398002203 D-loop; other site 290398002204 H-loop/switch region; other site 290398002205 TOBE domain; Region: TOBE_2; pfam08402 290398002206 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 290398002207 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398002208 motif II; other site 290398002209 sorbitol dehydrogenase; Provisional; Region: PRK07067 290398002210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398002211 NAD(P) binding site [chemical binding]; other site 290398002212 active site 290398002213 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290398002214 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 290398002215 substrate binding site [chemical binding]; other site 290398002216 ATP binding site [chemical binding]; other site 290398002217 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 290398002218 short chain dehydrogenase; Provisional; Region: PRK06841 290398002219 classical (c) SDRs; Region: SDR_c; cd05233 290398002220 NAD(P) binding site [chemical binding]; other site 290398002221 active site 290398002222 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 290398002223 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 290398002224 active site 290398002225 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 290398002226 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290398002227 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290398002228 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 290398002229 N- and C-terminal domain interface [polypeptide binding]; other site 290398002230 D-xylulose kinase; Region: XylB; TIGR01312 290398002231 active site 290398002232 MgATP binding site [chemical binding]; other site 290398002233 catalytic site [active] 290398002234 metal binding site [ion binding]; metal-binding site 290398002235 xylulose binding site [chemical binding]; other site 290398002236 putative homodimer interface [polypeptide binding]; other site 290398002237 transaldolase-like protein; Provisional; Region: PTZ00411 290398002238 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 290398002239 active site 290398002240 dimer interface [polypeptide binding]; other site 290398002241 catalytic residue [active] 290398002242 succinic semialdehyde dehydrogenase; Region: PLN02278 290398002243 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 290398002244 tetramerization interface [polypeptide binding]; other site 290398002245 NAD(P) binding site [chemical binding]; other site 290398002246 catalytic residues [active] 290398002247 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 290398002248 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 290398002249 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 290398002250 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 290398002251 TPR motif; other site 290398002252 binding surface 290398002253 short chain dehydrogenase; Provisional; Region: PRK09072 290398002254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398002255 NAD(P) binding site [chemical binding]; other site 290398002256 active site 290398002257 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 290398002258 heme binding pocket [chemical binding]; other site 290398002259 heme ligand [chemical binding]; other site 290398002260 Thermostable hemolysin; Region: T_hemolysin; pfam12261 290398002261 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 290398002262 BCCT family transporter; Region: BCCT; pfam02028 290398002263 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 290398002264 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 290398002265 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 290398002266 substrate binding site [chemical binding]; other site 290398002267 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398002268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398002269 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398002270 dimerization interface [polypeptide binding]; other site 290398002271 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398002272 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 290398002273 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398002274 DctM-like transporters; Region: DctM; pfam06808 290398002275 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398002276 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 290398002277 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 290398002278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 290398002279 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290398002280 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398002281 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398002282 dimerization interface [polypeptide binding]; other site 290398002283 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 290398002284 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290398002285 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 290398002286 dimer interface [polypeptide binding]; other site 290398002287 putative radical transfer pathway; other site 290398002288 diiron center [ion binding]; other site 290398002289 tyrosyl radical; other site 290398002290 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 290398002291 ATP cone domain; Region: ATP-cone; pfam03477 290398002292 ATP cone domain; Region: ATP-cone; pfam03477 290398002293 Class I ribonucleotide reductase; Region: RNR_I; cd01679 290398002294 active site 290398002295 dimer interface [polypeptide binding]; other site 290398002296 catalytic residues [active] 290398002297 effector binding site; other site 290398002298 R2 peptide binding site; other site 290398002299 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 290398002300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398002301 active site 290398002302 phosphorylation site [posttranslational modification] 290398002303 intermolecular recognition site; other site 290398002304 dimerization interface [polypeptide binding]; other site 290398002305 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398002306 DNA binding site [nucleotide binding] 290398002307 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398002308 dimerization interface [polypeptide binding]; other site 290398002309 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398002310 dimer interface [polypeptide binding]; other site 290398002311 phosphorylation site [posttranslational modification] 290398002312 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398002313 ATP binding site [chemical binding]; other site 290398002314 Mg2+ binding site [ion binding]; other site 290398002315 G-X-G motif; other site 290398002316 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 290398002317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398002318 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 290398002319 putative dimerization interface [polypeptide binding]; other site 290398002320 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 290398002321 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 290398002322 THF binding site; other site 290398002323 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 290398002324 substrate binding site [chemical binding]; other site 290398002325 THF binding site; other site 290398002326 zinc-binding site [ion binding]; other site 290398002327 Predicted membrane protein [Function unknown]; Region: COG3650 290398002328 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290398002329 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290398002330 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 290398002331 putative active site [active] 290398002332 N-formylglutamate amidohydrolase; Region: FGase; cl01522 290398002333 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 290398002334 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290398002335 DctM-like transporters; Region: DctM; pfam06808 290398002336 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 290398002337 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398002338 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290398002339 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290398002340 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 290398002341 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 290398002342 NAD(P) binding site [chemical binding]; other site 290398002343 catalytic residues [active] 290398002344 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 290398002345 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 290398002346 putative active site [active] 290398002347 metal binding site [ion binding]; metal-binding site 290398002348 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290398002349 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290398002350 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 290398002351 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 290398002352 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 290398002353 dimer interface [polypeptide binding]; other site 290398002354 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290398002355 active site 290398002356 metal binding site [ion binding]; metal-binding site 290398002357 glutathione binding site [chemical binding]; other site 290398002358 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 290398002359 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 290398002360 ligand binding site [chemical binding]; other site 290398002361 active site 290398002362 Predicted membrane protein [Function unknown]; Region: COG2259 290398002363 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398002364 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398002365 metal binding site [ion binding]; metal-binding site 290398002366 active site 290398002367 I-site; other site 290398002368 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398002369 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398002370 metal binding site [ion binding]; metal-binding site 290398002371 active site 290398002372 I-site; other site 290398002373 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 290398002374 active site 290398002375 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 290398002376 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 290398002377 FMN binding site [chemical binding]; other site 290398002378 active site 290398002379 catalytic residues [active] 290398002380 substrate binding site [chemical binding]; other site 290398002381 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 290398002382 oxaloacetate decarboxylase; Provisional; Region: PRK14040 290398002383 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 290398002384 active site 290398002385 catalytic residues [active] 290398002386 metal binding site [ion binding]; metal-binding site 290398002387 homodimer binding site [polypeptide binding]; other site 290398002388 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 290398002389 carboxyltransferase (CT) interaction site; other site 290398002390 biotinylation site [posttranslational modification]; other site 290398002391 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 290398002392 Uncharacterized conserved protein [Function unknown]; Region: COG1739 290398002393 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 290398002394 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 290398002395 Catalytic site [active] 290398002396 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 290398002397 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 290398002398 Walker A/P-loop; other site 290398002399 ATP binding site [chemical binding]; other site 290398002400 Q-loop/lid; other site 290398002401 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 290398002402 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 290398002403 ABC transporter signature motif; other site 290398002404 Walker B; other site 290398002405 D-loop; other site 290398002406 H-loop/switch region; other site 290398002407 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 290398002408 FtsZ protein binding site [polypeptide binding]; other site 290398002409 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 290398002410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398002411 active site 290398002412 phosphorylation site [posttranslational modification] 290398002413 intermolecular recognition site; other site 290398002414 dimerization interface [polypeptide binding]; other site 290398002415 Transcriptional regulator; Region: CitT; pfam12431 290398002416 sensory histidine kinase DcuS; Provisional; Region: PRK11086 290398002417 GAF domain; Region: GAF; cl17456 290398002418 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398002419 ATP binding site [chemical binding]; other site 290398002420 Mg2+ binding site [ion binding]; other site 290398002421 G-X-G motif; other site 290398002422 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 290398002423 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 290398002424 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 290398002425 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 290398002426 nucleotide binding pocket [chemical binding]; other site 290398002427 K-X-D-G motif; other site 290398002428 catalytic site [active] 290398002429 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 290398002430 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 290398002431 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 290398002432 Dimer interface [polypeptide binding]; other site 290398002433 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 290398002434 Uncharacterized conserved protein [Function unknown]; Region: COG4121 290398002435 YciI-like protein; Reviewed; Region: PRK11370 290398002436 intracellular septation protein A; Reviewed; Region: PRK00259 290398002437 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 290398002438 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 290398002439 active site 290398002440 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 290398002441 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 290398002442 Ion transport protein; Region: Ion_trans; pfam00520 290398002443 Ion channel; Region: Ion_trans_2; pfam07885 290398002444 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 290398002445 putative active site [active] 290398002446 putative metal binding residues [ion binding]; other site 290398002447 signature motif; other site 290398002448 putative triphosphate binding site [ion binding]; other site 290398002449 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 290398002450 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 290398002451 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 290398002452 N-acetylglutamate synthase; Validated; Region: PRK05279 290398002453 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 290398002454 putative feedback inhibition sensing region; other site 290398002455 putative nucleotide binding site [chemical binding]; other site 290398002456 putative substrate binding site [chemical binding]; other site 290398002457 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398002458 Coenzyme A binding pocket [chemical binding]; other site 290398002459 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 290398002460 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290398002461 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398002462 dimer interface [polypeptide binding]; other site 290398002463 phosphorylation site [posttranslational modification] 290398002464 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398002465 ATP binding site [chemical binding]; other site 290398002466 Mg2+ binding site [ion binding]; other site 290398002467 G-X-G motif; other site 290398002468 response regulator GlrR; Provisional; Region: PRK15115 290398002469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398002470 active site 290398002471 phosphorylation site [posttranslational modification] 290398002472 intermolecular recognition site; other site 290398002473 dimerization interface [polypeptide binding]; other site 290398002474 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398002475 Walker A motif; other site 290398002476 ATP binding site [chemical binding]; other site 290398002477 Walker B motif; other site 290398002478 arginine finger; other site 290398002479 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 290398002480 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 290398002481 generic binding surface II; other site 290398002482 generic binding surface I; other site 290398002483 DctM-like transporters; Region: DctM; pfam06808 290398002484 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398002485 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398002486 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398002487 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 290398002488 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290398002489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398002490 DNA-binding site [nucleotide binding]; DNA binding site 290398002491 UTRA domain; Region: UTRA; pfam07702 290398002492 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 290398002493 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 290398002494 active site 290398002495 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 290398002496 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290398002497 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398002498 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 290398002499 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398002500 active site 290398002501 phosphorylation site [posttranslational modification] 290398002502 intermolecular recognition site; other site 290398002503 dimerization interface [polypeptide binding]; other site 290398002504 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398002505 DNA binding site [nucleotide binding] 290398002506 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 290398002507 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 290398002508 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 290398002509 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398002510 dimer interface [polypeptide binding]; other site 290398002511 phosphorylation site [posttranslational modification] 290398002512 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398002513 ATP binding site [chemical binding]; other site 290398002514 Mg2+ binding site [ion binding]; other site 290398002515 G-X-G motif; other site 290398002516 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 290398002517 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 290398002518 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 290398002519 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 290398002520 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 290398002521 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 290398002522 active site 290398002523 GMP synthase; Reviewed; Region: guaA; PRK00074 290398002524 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 290398002525 AMP/PPi binding site [chemical binding]; other site 290398002526 candidate oxyanion hole; other site 290398002527 catalytic triad [active] 290398002528 potential glutamine specificity residues [chemical binding]; other site 290398002529 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 290398002530 ATP Binding subdomain [chemical binding]; other site 290398002531 Ligand Binding sites [chemical binding]; other site 290398002532 Dimerization subdomain; other site 290398002533 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 290398002534 active site 290398002535 Zn binding site [ion binding]; other site 290398002536 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 290398002537 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 290398002538 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398002539 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398002540 S-adenosylmethionine binding site [chemical binding]; other site 290398002541 tyrosine decarboxylase; Region: PLN02880 290398002542 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 290398002543 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290398002544 catalytic residue [active] 290398002545 Cupin domain; Region: Cupin_2; pfam07883 290398002546 Helix-turn-helix domain; Region: HTH_18; pfam12833 290398002547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398002548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398002549 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290398002550 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 290398002551 dimerization interface [polypeptide binding]; other site 290398002552 substrate binding pocket [chemical binding]; other site 290398002553 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290398002554 EamA-like transporter family; Region: EamA; pfam00892 290398002555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398002556 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290398002557 putative substrate translocation pore; other site 290398002558 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398002559 salt bridge; other site 290398002560 non-specific DNA binding site [nucleotide binding]; other site 290398002561 sequence-specific DNA binding site [nucleotide binding]; other site 290398002562 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290398002563 DNA-binding site [nucleotide binding]; DNA binding site 290398002564 RNA-binding motif; other site 290398002565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 290398002566 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398002567 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398002568 DNA-binding site [nucleotide binding]; DNA binding site 290398002569 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290398002570 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398002571 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398002572 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398002573 DctM-like transporters; Region: DctM; pfam06808 290398002574 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398002575 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 290398002576 Uncharacterized conserved protein [Function unknown]; Region: COG1432 290398002577 LabA_like proteins; Region: LabA; cd10911 290398002578 putative metal binding site [ion binding]; other site 290398002579 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 290398002580 homotrimer interaction site [polypeptide binding]; other site 290398002581 putative active site [active] 290398002582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398002583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398002584 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 290398002585 putative effector binding pocket; other site 290398002586 putative dimerization interface [polypeptide binding]; other site 290398002587 Uncharacterized conserved protein [Function unknown]; Region: COG3791 290398002588 SnoaL-like domain; Region: SnoaL_2; pfam12680 290398002589 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290398002590 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290398002591 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290398002592 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 290398002593 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398002594 putative substrate translocation pore; other site 290398002595 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 290398002596 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 290398002597 Metal-binding active site; metal-binding site 290398002598 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 290398002599 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290398002600 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290398002601 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290398002602 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290398002603 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290398002604 DNA binding site [nucleotide binding] 290398002605 domain linker motif; other site 290398002606 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 290398002607 dimerization interface [polypeptide binding]; other site 290398002608 ligand binding site [chemical binding]; other site 290398002609 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 290398002610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 290398002611 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290398002612 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398002613 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 290398002614 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 290398002615 AAA domain; Region: AAA_11; pfam13086 290398002616 Part of AAA domain; Region: AAA_19; pfam13245 290398002617 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 290398002618 AAA domain; Region: AAA_12; pfam13087 290398002619 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 290398002620 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 290398002621 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398002622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398002623 DNA-binding site [nucleotide binding]; DNA binding site 290398002624 FCD domain; Region: FCD; pfam07729 290398002625 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290398002626 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290398002627 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290398002628 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290398002629 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 290398002630 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290398002631 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290398002632 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 290398002633 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290398002634 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290398002635 LysR family transcriptional regulator; Provisional; Region: PRK14997 290398002636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398002637 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 290398002638 putative effector binding pocket; other site 290398002639 putative dimerization interface [polypeptide binding]; other site 290398002640 short chain dehydrogenase; Provisional; Region: PRK12937 290398002641 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 290398002642 NADP binding site [chemical binding]; other site 290398002643 homodimer interface [polypeptide binding]; other site 290398002644 active site 290398002645 substrate binding site [chemical binding]; other site 290398002646 H+ Antiporter protein; Region: 2A0121; TIGR00900 290398002647 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398002648 putative substrate translocation pore; other site 290398002649 YCII-related domain; Region: YCII; cl00999 290398002650 short chain dehydrogenase; Provisional; Region: PRK06701 290398002651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398002652 NAD(P) binding site [chemical binding]; other site 290398002653 active site 290398002654 dimerization interface [polypeptide binding]; other site 290398002655 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 290398002656 putative active cleft [active] 290398002657 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 290398002658 putative S-transferase; Provisional; Region: PRK11752 290398002659 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 290398002660 C-terminal domain interface [polypeptide binding]; other site 290398002661 GSH binding site (G-site) [chemical binding]; other site 290398002662 dimer interface [polypeptide binding]; other site 290398002663 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 290398002664 dimer interface [polypeptide binding]; other site 290398002665 N-terminal domain interface [polypeptide binding]; other site 290398002666 active site 290398002667 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 290398002668 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398002669 active site 290398002670 motif I; other site 290398002671 motif II; other site 290398002672 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398002673 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 290398002674 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 290398002675 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 290398002676 Prostaglandin dehydrogenases; Region: PGDH; cd05288 290398002677 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 290398002678 NAD(P) binding site [chemical binding]; other site 290398002679 substrate binding site [chemical binding]; other site 290398002680 dimer interface [polypeptide binding]; other site 290398002681 META domain; Region: META; pfam03724 290398002682 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 290398002683 active site 290398002684 catalytic residues [active] 290398002685 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290398002686 GAF domain; Region: GAF; pfam01590 290398002687 GAF domain; Region: GAF_2; pfam13185 290398002688 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398002689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398002690 metal binding site [ion binding]; metal-binding site 290398002691 active site 290398002692 I-site; other site 290398002693 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398002694 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 290398002695 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 290398002696 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 290398002697 tetramer interface [polypeptide binding]; other site 290398002698 heme binding pocket [chemical binding]; other site 290398002699 NADPH binding site [chemical binding]; other site 290398002700 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398002701 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398002702 active site 290398002703 catalytic tetrad [active] 290398002704 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 290398002705 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 290398002706 nucleoid-associated protein NdpA; Validated; Region: PRK00378 290398002707 Nucleoid-associated protein [General function prediction only]; Region: COG3081 290398002708 ABC-2 type transporter; Region: ABC2_membrane; cl17235 290398002709 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 290398002710 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290398002711 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290398002712 Walker A/P-loop; other site 290398002713 ATP binding site [chemical binding]; other site 290398002714 Q-loop/lid; other site 290398002715 ABC transporter signature motif; other site 290398002716 Walker B; other site 290398002717 D-loop; other site 290398002718 H-loop/switch region; other site 290398002719 hypothetical protein; Provisional; Region: PRK12378 290398002720 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 290398002721 Repair protein; Region: Repair_PSII; pfam04536 290398002722 Repair protein; Region: Repair_PSII; cl01535 290398002723 Cupin domain; Region: Cupin_2; cl17218 290398002724 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 290398002725 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 290398002726 putative NAD(P) binding site [chemical binding]; other site 290398002727 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 290398002728 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 290398002729 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 290398002730 ATP binding site [chemical binding]; other site 290398002731 Mg++ binding site [ion binding]; other site 290398002732 motif III; other site 290398002733 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398002734 nucleotide binding region [chemical binding]; other site 290398002735 ATP-binding site [chemical binding]; other site 290398002736 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290398002737 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398002738 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398002739 dimerization interface [polypeptide binding]; other site 290398002740 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 290398002741 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290398002742 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 290398002743 BCCT family transporter; Region: BCCT; pfam02028 290398002744 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 290398002745 Protein of unknown function, DUF606; Region: DUF606; pfam04657 290398002746 Protein of unknown function, DUF606; Region: DUF606; pfam04657 290398002747 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398002748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398002749 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 290398002750 putative effector binding pocket; other site 290398002751 dimerization interface [polypeptide binding]; other site 290398002752 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 290398002753 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 290398002754 Sulfate transporter family; Region: Sulfate_transp; pfam00916 290398002755 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 290398002756 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 290398002757 active site clefts [active] 290398002758 zinc binding site [ion binding]; other site 290398002759 dimer interface [polypeptide binding]; other site 290398002760 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 290398002761 active site 290398002762 catalytic motif [active] 290398002763 Zn binding site [ion binding]; other site 290398002764 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 290398002765 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 290398002766 phosphopentomutase; Provisional; Region: PRK05362 290398002767 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 290398002768 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 290398002769 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 290398002770 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 290398002771 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 290398002772 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 290398002773 intersubunit interface [polypeptide binding]; other site 290398002774 active site 290398002775 catalytic residue [active] 290398002776 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290398002777 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 290398002778 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290398002779 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290398002780 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 290398002781 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 290398002782 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 290398002783 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398002784 PAS domain; Region: PAS_9; pfam13426 290398002785 putative active site [active] 290398002786 heme pocket [chemical binding]; other site 290398002787 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398002788 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398002789 metal binding site [ion binding]; metal-binding site 290398002790 active site 290398002791 I-site; other site 290398002792 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398002793 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 290398002794 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290398002795 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398002796 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398002797 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 290398002798 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 290398002799 putative NAD(P) binding site [chemical binding]; other site 290398002800 putative substrate binding site [chemical binding]; other site 290398002801 catalytic Zn binding site [ion binding]; other site 290398002802 structural Zn binding site [ion binding]; other site 290398002803 dimer interface [polypeptide binding]; other site 290398002804 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 290398002805 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 290398002806 active site 290398002807 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 290398002808 catalytic triad [active] 290398002809 dimer interface [polypeptide binding]; other site 290398002810 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 290398002811 nucleoside/Zn binding site; other site 290398002812 dimer interface [polypeptide binding]; other site 290398002813 catalytic motif [active] 290398002814 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 290398002815 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398002816 substrate binding pocket [chemical binding]; other site 290398002817 membrane-bound complex binding site; other site 290398002818 hinge residues; other site 290398002819 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290398002820 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290398002821 catalytic residue [active] 290398002822 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 290398002823 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 290398002824 dimerization interface [polypeptide binding]; other site 290398002825 ATP binding site [chemical binding]; other site 290398002826 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 290398002827 dimerization interface [polypeptide binding]; other site 290398002828 ATP binding site [chemical binding]; other site 290398002829 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 290398002830 putative active site [active] 290398002831 catalytic triad [active] 290398002832 Uncharacterized conserved protein [Function unknown]; Region: COG1359 290398002833 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 290398002834 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 290398002835 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398002836 ATP binding site [chemical binding]; other site 290398002837 putative Mg++ binding site [ion binding]; other site 290398002838 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398002839 nucleotide binding region [chemical binding]; other site 290398002840 ATP-binding site [chemical binding]; other site 290398002841 Double zinc ribbon; Region: DZR; pfam12773 290398002842 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 290398002843 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 290398002844 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 290398002845 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 290398002846 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 290398002847 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398002848 FeS/SAM binding site; other site 290398002849 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 290398002850 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 290398002851 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 290398002852 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 290398002853 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 290398002854 RNA binding surface [nucleotide binding]; other site 290398002855 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 290398002856 probable active site [active] 290398002857 quinolinate synthetase; Provisional; Region: PRK09375 290398002858 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 290398002859 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 290398002860 dimerization interface [polypeptide binding]; other site 290398002861 active site 290398002862 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 290398002863 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 290398002864 amidase catalytic site [active] 290398002865 Zn binding residues [ion binding]; other site 290398002866 substrate binding site [chemical binding]; other site 290398002867 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 290398002868 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 290398002869 dimer interface [polypeptide binding]; other site 290398002870 TPP-binding site [chemical binding]; other site 290398002871 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 290398002872 E3 interaction surface; other site 290398002873 lipoyl attachment site [posttranslational modification]; other site 290398002874 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 290398002875 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 290398002876 E3 interaction surface; other site 290398002877 lipoyl attachment site [posttranslational modification]; other site 290398002878 e3 binding domain; Region: E3_binding; pfam02817 290398002879 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 290398002880 adenylate kinase; Reviewed; Region: adk; PRK00279 290398002881 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 290398002882 AMP-binding site [chemical binding]; other site 290398002883 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 290398002884 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 290398002885 Glycoprotease family; Region: Peptidase_M22; pfam00814 290398002886 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 290398002887 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 290398002888 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 290398002889 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 290398002890 putative acyl-acceptor binding pocket; other site 290398002891 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 290398002892 PLD-like domain; Region: PLDc_2; pfam13091 290398002893 putative active site [active] 290398002894 catalytic site [active] 290398002895 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 290398002896 PLD-like domain; Region: PLDc_2; pfam13091 290398002897 putative active site [active] 290398002898 catalytic site [active] 290398002899 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 290398002900 hypothetical protein; Provisional; Region: PRK04860 290398002901 SprT homologues; Region: SprT; cl01182 290398002902 acetyl-CoA synthetase; Provisional; Region: PRK00174 290398002903 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 290398002904 active site 290398002905 CoA binding site [chemical binding]; other site 290398002906 acyl-activating enzyme (AAE) consensus motif; other site 290398002907 AMP binding site [chemical binding]; other site 290398002908 acetate binding site [chemical binding]; other site 290398002909 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290398002910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398002911 active site 290398002912 phosphorylation site [posttranslational modification] 290398002913 intermolecular recognition site; other site 290398002914 dimerization interface [polypeptide binding]; other site 290398002915 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 290398002916 DNA binding residues [nucleotide binding] 290398002917 dimerization interface [polypeptide binding]; other site 290398002918 manganese transport regulator MntR; Provisional; Region: PRK11050 290398002919 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 290398002920 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 290398002921 manganese transport protein MntH; Reviewed; Region: PRK00701 290398002922 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 290398002923 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 290398002924 Na binding site [ion binding]; other site 290398002925 PAS fold; Region: PAS_7; pfam12860 290398002926 PAS fold; Region: PAS_4; pfam08448 290398002927 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398002928 putative active site [active] 290398002929 heme pocket [chemical binding]; other site 290398002930 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290398002931 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398002932 dimer interface [polypeptide binding]; other site 290398002933 phosphorylation site [posttranslational modification] 290398002934 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398002935 ATP binding site [chemical binding]; other site 290398002936 Mg2+ binding site [ion binding]; other site 290398002937 G-X-G motif; other site 290398002938 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 290398002939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398002940 active site 290398002941 phosphorylation site [posttranslational modification] 290398002942 intermolecular recognition site; other site 290398002943 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 290398002944 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 290398002945 Na binding site [ion binding]; other site 290398002946 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 290398002947 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 290398002948 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 290398002949 ligand binding site [chemical binding]; other site 290398002950 flexible hinge region; other site 290398002951 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 290398002952 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290398002953 metal binding triad; other site 290398002954 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 290398002955 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 290398002956 active site 290398002957 catalytic site [active] 290398002958 substrate binding site [chemical binding]; other site 290398002959 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 290398002960 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 290398002961 Ligand Binding Site [chemical binding]; other site 290398002962 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 290398002963 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 290398002964 ligand binding site [chemical binding]; other site 290398002965 flexible hinge region; other site 290398002966 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 290398002967 putative switch regulator; other site 290398002968 non-specific DNA interactions [nucleotide binding]; other site 290398002969 DNA binding site [nucleotide binding] 290398002970 sequence specific DNA binding site [nucleotide binding]; other site 290398002971 putative cAMP binding site [chemical binding]; other site 290398002972 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 290398002973 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 290398002974 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290398002975 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398002976 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 290398002977 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 290398002978 active site 290398002979 FMN binding site [chemical binding]; other site 290398002980 2,4-decadienoyl-CoA binding site; other site 290398002981 catalytic residue [active] 290398002982 4Fe-4S cluster binding site [ion binding]; other site 290398002983 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290398002984 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398002985 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 290398002986 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 290398002987 tetramer interface [polypeptide binding]; other site 290398002988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398002989 catalytic residue [active] 290398002990 PrkA family serine protein kinase; Provisional; Region: PRK15455 290398002991 AAA ATPase domain; Region: AAA_16; pfam13191 290398002992 Walker A motif; other site 290398002993 ATP binding site [chemical binding]; other site 290398002994 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 290398002995 hypothetical protein; Provisional; Region: PRK05325 290398002996 SpoVR family protein; Provisional; Region: PRK11767 290398002997 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 290398002998 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290398002999 AsnC family; Region: AsnC_trans_reg; pfam01037 290398003000 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 290398003001 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 290398003002 active site 290398003003 substrate binding site [chemical binding]; other site 290398003004 Mg2+ binding site [ion binding]; other site 290398003005 exoribonuclease R; Provisional; Region: PRK11642 290398003006 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 290398003007 RNB domain; Region: RNB; pfam00773 290398003008 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 290398003009 RNA binding site [nucleotide binding]; other site 290398003010 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 290398003011 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 290398003012 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290398003013 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 290398003014 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 290398003015 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 290398003016 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 290398003017 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 290398003018 replicative DNA helicase; Provisional; Region: PRK05748 290398003019 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 290398003020 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 290398003021 Walker A motif; other site 290398003022 ATP binding site [chemical binding]; other site 290398003023 Walker B motif; other site 290398003024 DNA binding loops [nucleotide binding] 290398003025 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398003026 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 290398003027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398003028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398003029 metal binding site [ion binding]; metal-binding site 290398003030 active site 290398003031 I-site; other site 290398003032 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 290398003033 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 290398003034 ferrochelatase; Reviewed; Region: hemH; PRK00035 290398003035 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 290398003036 C-terminal domain interface [polypeptide binding]; other site 290398003037 active site 290398003038 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 290398003039 active site 290398003040 N-terminal domain interface [polypeptide binding]; other site 290398003041 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 290398003042 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 290398003043 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 290398003044 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 290398003045 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290398003046 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 290398003047 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 290398003048 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290398003049 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 290398003050 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 290398003051 Transglycosylase SLT domain; Region: SLT_2; pfam13406 290398003052 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290398003053 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290398003054 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290398003055 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 290398003056 PAS domain; Region: PAS_9; pfam13426 290398003057 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398003058 putative active site [active] 290398003059 heme pocket [chemical binding]; other site 290398003060 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398003061 PAS domain; Region: PAS_9; pfam13426 290398003062 putative active site [active] 290398003063 heme pocket [chemical binding]; other site 290398003064 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398003065 dimer interface [polypeptide binding]; other site 290398003066 putative CheW interface [polypeptide binding]; other site 290398003067 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398003068 PAS domain; Region: PAS_9; pfam13426 290398003069 putative active site [active] 290398003070 heme pocket [chemical binding]; other site 290398003071 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398003072 PAS domain; Region: PAS_9; pfam13426 290398003073 putative active site [active] 290398003074 heme pocket [chemical binding]; other site 290398003075 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398003076 dimer interface [polypeptide binding]; other site 290398003077 putative CheW interface [polypeptide binding]; other site 290398003078 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 290398003079 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 290398003080 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 290398003081 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 290398003082 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 290398003083 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 290398003084 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 290398003085 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 290398003086 phosphoribulokinase; Provisional; Region: PRK15453 290398003087 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 290398003088 nucleotide binding site/active site [active] 290398003089 HIT family signature motif; other site 290398003090 catalytic residue [active] 290398003091 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 290398003092 diiron binding motif [ion binding]; other site 290398003093 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 290398003094 OsmC-like protein; Region: OsmC; cl00767 290398003095 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 290398003096 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 290398003097 Substrate binding site; other site 290398003098 metal-binding site 290398003099 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 290398003100 Phosphotransferase enzyme family; Region: APH; pfam01636 290398003101 organic solvent tolerance protein; Provisional; Region: PRK04423 290398003102 Organic solvent tolerance protein; Region: OstA_C; pfam04453 290398003103 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 290398003104 SurA N-terminal domain; Region: SurA_N; pfam09312 290398003105 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 290398003106 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 290398003107 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 290398003108 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 290398003109 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 290398003110 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 290398003111 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 290398003112 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 290398003113 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 290398003114 active site 290398003115 metal binding site [ion binding]; metal-binding site 290398003116 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 290398003117 active site residue [active] 290398003118 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 290398003119 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 290398003120 active site 290398003121 NTP binding site [chemical binding]; other site 290398003122 metal binding triad [ion binding]; metal-binding site 290398003123 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 290398003124 GntP family permease; Region: GntP_permease; pfam02447 290398003125 fructuronate transporter; Provisional; Region: PRK10034; cl15264 290398003126 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 290398003127 AAA domain; Region: AAA_33; pfam13671 290398003128 ATP-binding site [chemical binding]; other site 290398003129 Gluconate-6-phosphate binding site [chemical binding]; other site 290398003130 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290398003131 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290398003132 DNA binding site [nucleotide binding] 290398003133 domain linker motif; other site 290398003134 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 290398003135 putative ligand binding site [chemical binding]; other site 290398003136 putative dimerization interface [polypeptide binding]; other site 290398003137 Predicted membrane protein [Function unknown]; Region: COG2431 290398003138 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 290398003139 intracellular protease, PfpI family; Region: PfpI; TIGR01382 290398003140 conserved cys residue [active] 290398003141 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290398003142 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 290398003143 putative substrate binding site [chemical binding]; other site 290398003144 putative ATP binding site [chemical binding]; other site 290398003145 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 290398003146 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 290398003147 active site 290398003148 dimer interface [polypeptide binding]; other site 290398003149 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 290398003150 dimer interface [polypeptide binding]; other site 290398003151 active site 290398003152 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398003153 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398003154 active site 290398003155 catalytic tetrad [active] 290398003156 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 290398003157 active site 290398003158 phosphate binding residues; other site 290398003159 catalytic residues [active] 290398003160 glucokinase, proteobacterial type; Region: glk; TIGR00749 290398003161 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290398003162 nucleotide binding site [chemical binding]; other site 290398003163 phosphogluconate dehydratase; Validated; Region: PRK09054 290398003164 6-phosphogluconate dehydratase; Region: edd; TIGR01196 290398003165 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 290398003166 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 290398003167 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290398003168 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398003169 PAS fold; Region: PAS_3; pfam08447 290398003170 putative active site [active] 290398003171 heme pocket [chemical binding]; other site 290398003172 PAS domain S-box; Region: sensory_box; TIGR00229 290398003173 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398003174 putative active site [active] 290398003175 heme pocket [chemical binding]; other site 290398003176 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398003177 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398003178 metal binding site [ion binding]; metal-binding site 290398003179 active site 290398003180 I-site; other site 290398003181 Dienelactone hydrolase family; Region: DLH; pfam01738 290398003182 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290398003183 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 290398003184 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 290398003185 active site 290398003186 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 290398003187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 290398003188 Protein of unknown function, DUF482; Region: DUF482; pfam04339 290398003189 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 290398003190 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 290398003191 TrkA-N domain; Region: TrkA_N; pfam02254 290398003192 Fructosamine kinase; Region: Fructosamin_kin; cl17579 290398003193 Phosphotransferase enzyme family; Region: APH; pfam01636 290398003194 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398003195 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398003196 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 290398003197 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290398003198 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290398003199 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398003200 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 290398003201 Protein export membrane protein; Region: SecD_SecF; cl14618 290398003202 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290398003203 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290398003204 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 290398003205 HSP70 interaction site [polypeptide binding]; other site 290398003206 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 290398003207 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 290398003208 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 290398003209 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 290398003210 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 290398003211 D-pathway; other site 290398003212 Putative ubiquinol binding site [chemical binding]; other site 290398003213 Low-spin heme (heme b) binding site [chemical binding]; other site 290398003214 Putative water exit pathway; other site 290398003215 Binuclear center (heme o3/CuB) [ion binding]; other site 290398003216 K-pathway; other site 290398003217 Putative proton exit pathway; other site 290398003218 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 290398003219 Subunit I/III interface [polypeptide binding]; other site 290398003220 Subunit III/IV interface [polypeptide binding]; other site 290398003221 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 290398003222 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 290398003223 UbiA prenyltransferase family; Region: UbiA; pfam01040 290398003224 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 290398003225 ThiC-associated domain; Region: ThiC-associated; pfam13667 290398003226 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 290398003227 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 290398003228 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290398003229 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 290398003230 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 290398003231 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 290398003232 putative acyl-acceptor binding pocket; other site 290398003233 Predicted membrane protein [Function unknown]; Region: COG3671 290398003234 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 290398003235 dimer interface [polypeptide binding]; other site 290398003236 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290398003237 metal binding site [ion binding]; metal-binding site 290398003238 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290398003239 Methyltransferase domain; Region: Methyltransf_11; pfam08241 290398003240 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 290398003241 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 290398003242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398003243 active site 290398003244 phosphorylation site [posttranslational modification] 290398003245 intermolecular recognition site; other site 290398003246 dimerization interface [polypeptide binding]; other site 290398003247 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398003248 DNA binding site [nucleotide binding] 290398003249 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 290398003250 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398003251 dimerization interface [polypeptide binding]; other site 290398003252 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398003253 dimer interface [polypeptide binding]; other site 290398003254 phosphorylation site [posttranslational modification] 290398003255 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398003256 ATP binding site [chemical binding]; other site 290398003257 Mg2+ binding site [ion binding]; other site 290398003258 G-X-G motif; other site 290398003259 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 290398003260 catalytic center binding site [active] 290398003261 ATP binding site [chemical binding]; other site 290398003262 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 290398003263 homooctamer interface [polypeptide binding]; other site 290398003264 active site 290398003265 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 290398003266 UGMP family protein; Validated; Region: PRK09604 290398003267 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 290398003268 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 290398003269 DNA primase; Validated; Region: dnaG; PRK05667 290398003270 CHC2 zinc finger; Region: zf-CHC2; pfam01807 290398003271 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 290398003272 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 290398003273 active site 290398003274 metal binding site [ion binding]; metal-binding site 290398003275 interdomain interaction site; other site 290398003276 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 290398003277 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 290398003278 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 290398003279 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 290398003280 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 290398003281 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 290398003282 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290398003283 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 290398003284 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 290398003285 DNA binding residues [nucleotide binding] 290398003286 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 290398003287 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 290398003288 ligand binding site [chemical binding]; other site 290398003289 flexible hinge region; other site 290398003290 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 290398003291 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290398003292 metal binding triad; other site 290398003293 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 290398003294 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 290398003295 active site 290398003296 catalytic site [active] 290398003297 substrate binding site [chemical binding]; other site 290398003298 BCCT family transporter; Region: BCCT; pfam02028 290398003299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398003300 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290398003301 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 290398003302 dimerization interface [polypeptide binding]; other site 290398003303 substrate binding pocket [chemical binding]; other site 290398003304 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 290398003305 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 290398003306 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 290398003307 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290398003308 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 290398003309 ligand binding site [chemical binding]; other site 290398003310 flexible hinge region; other site 290398003311 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 290398003312 putative switch regulator; other site 290398003313 non-specific DNA interactions [nucleotide binding]; other site 290398003314 DNA binding site [nucleotide binding] 290398003315 sequence specific DNA binding site [nucleotide binding]; other site 290398003316 putative cAMP binding site [chemical binding]; other site 290398003317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398003318 LysR family transcriptional regulator; Provisional; Region: PRK14997 290398003319 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 290398003320 putative effector binding pocket; other site 290398003321 putative dimerization interface [polypeptide binding]; other site 290398003322 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 290398003323 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 290398003324 substrate binding site [chemical binding]; other site 290398003325 catalytic Zn binding site [ion binding]; other site 290398003326 NAD binding site [chemical binding]; other site 290398003327 structural Zn binding site [ion binding]; other site 290398003328 dimer interface [polypeptide binding]; other site 290398003329 S-formylglutathione hydrolase; Region: PLN02442 290398003330 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 290398003331 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 290398003332 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 290398003333 conserved cys residue [active] 290398003334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398003335 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398003336 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 290398003337 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 290398003338 active site 290398003339 dimer interface [polypeptide binding]; other site 290398003340 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 290398003341 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 290398003342 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 290398003343 putative active site [active] 290398003344 putative FMN binding site [chemical binding]; other site 290398003345 putative substrate binding site [chemical binding]; other site 290398003346 putative catalytic residue [active] 290398003347 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398003348 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 290398003349 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 290398003350 Cysteine-rich domain; Region: CCG; pfam02754 290398003351 Cysteine-rich domain; Region: CCG; pfam02754 290398003352 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 290398003353 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290398003354 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 290398003355 Electron transfer flavoprotein domain; Region: ETF; pfam01012 290398003356 Ligand Binding Site [chemical binding]; other site 290398003357 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290398003358 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 290398003359 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 290398003360 NAD binding site [chemical binding]; other site 290398003361 catalytic Zn binding site [ion binding]; other site 290398003362 structural Zn binding site [ion binding]; other site 290398003363 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 290398003364 putative dimer interface [polypeptide binding]; other site 290398003365 [2Fe-2S] cluster binding site [ion binding]; other site 290398003366 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 290398003367 SLBB domain; Region: SLBB; pfam10531 290398003368 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 290398003369 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 290398003370 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398003371 catalytic loop [active] 290398003372 iron binding site [ion binding]; other site 290398003373 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 290398003374 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 290398003375 [4Fe-4S] binding site [ion binding]; other site 290398003376 molybdopterin cofactor binding site; other site 290398003377 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 290398003378 molybdopterin cofactor binding site; other site 290398003379 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 290398003380 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290398003381 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 290398003382 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 290398003383 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 290398003384 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290398003385 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 290398003386 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 290398003387 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 290398003388 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 290398003389 putative active site [active] 290398003390 putative substrate binding site [chemical binding]; other site 290398003391 putative cosubstrate binding site; other site 290398003392 catalytic site [active] 290398003393 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290398003394 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 290398003395 [2Fe-2S] cluster binding site [ion binding]; other site 290398003396 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 290398003397 putative alpha subunit interface [polypeptide binding]; other site 290398003398 putative active site [active] 290398003399 putative substrate binding site [chemical binding]; other site 290398003400 Fe binding site [ion binding]; other site 290398003401 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 290398003402 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 290398003403 FAD binding pocket [chemical binding]; other site 290398003404 FAD binding motif [chemical binding]; other site 290398003405 phosphate binding motif [ion binding]; other site 290398003406 beta-alpha-beta structure motif; other site 290398003407 NAD binding pocket [chemical binding]; other site 290398003408 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398003409 catalytic loop [active] 290398003410 iron binding site [ion binding]; other site 290398003411 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 290398003412 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 290398003413 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 290398003414 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 290398003415 active site 290398003416 Protein of unknown function (DUF533); Region: DUF533; pfam04391 290398003417 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 290398003418 putative metal binding site [ion binding]; other site 290398003419 LysE type translocator; Region: LysE; cl00565 290398003420 pyruvate dehydrogenase; Provisional; Region: PRK09124 290398003421 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 290398003422 PYR/PP interface [polypeptide binding]; other site 290398003423 dimer interface [polypeptide binding]; other site 290398003424 TPP binding site [chemical binding]; other site 290398003425 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290398003426 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 290398003427 TPP-binding site [chemical binding]; other site 290398003428 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290398003429 glutathionine S-transferase; Provisional; Region: PRK10542 290398003430 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 290398003431 C-terminal domain interface [polypeptide binding]; other site 290398003432 GSH binding site (G-site) [chemical binding]; other site 290398003433 dimer interface [polypeptide binding]; other site 290398003434 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 290398003435 dimer interface [polypeptide binding]; other site 290398003436 substrate binding pocket (H-site) [chemical binding]; other site 290398003437 N-terminal domain interface [polypeptide binding]; other site 290398003438 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 290398003439 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398003440 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 290398003441 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398003442 putative substrate translocation pore; other site 290398003443 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398003444 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 290398003445 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 290398003446 FMN binding site [chemical binding]; other site 290398003447 substrate binding site [chemical binding]; other site 290398003448 putative catalytic residue [active] 290398003449 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 290398003450 Transglycosylase; Region: Transgly; cl17702 290398003451 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290398003452 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290398003453 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 290398003454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398003455 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 290398003456 putative dimerization interface [polypeptide binding]; other site 290398003457 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 290398003458 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 290398003459 ligand binding site [chemical binding]; other site 290398003460 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 290398003461 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290398003462 Walker A/P-loop; other site 290398003463 ATP binding site [chemical binding]; other site 290398003464 Q-loop/lid; other site 290398003465 ABC transporter signature motif; other site 290398003466 Walker B; other site 290398003467 D-loop; other site 290398003468 H-loop/switch region; other site 290398003469 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290398003470 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290398003471 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290398003472 TM-ABC transporter signature motif; other site 290398003473 short chain dehydrogenase; Provisional; Region: PRK07063 290398003474 classical (c) SDRs; Region: SDR_c; cd05233 290398003475 NAD(P) binding site [chemical binding]; other site 290398003476 active site 290398003477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 290398003478 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 290398003479 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290398003480 DctM-like transporters; Region: DctM; pfam06808 290398003481 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290398003482 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398003483 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398003484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398003485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398003486 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398003487 dimerization interface [polypeptide binding]; other site 290398003488 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 290398003489 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290398003490 putative metal binding site [ion binding]; other site 290398003491 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 290398003492 putative active site [active] 290398003493 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 290398003494 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 290398003495 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 290398003496 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 290398003497 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290398003498 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 290398003499 putative active site [active] 290398003500 aspartate aminotransferase; Provisional; Region: PRK05764 290398003501 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398003502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398003503 homodimer interface [polypeptide binding]; other site 290398003504 catalytic residue [active] 290398003505 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 290398003506 CsbD-like; Region: CsbD; cl17424 290398003507 Predicted permeases [General function prediction only]; Region: COG0679 290398003508 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 290398003509 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 290398003510 Walker A/P-loop; other site 290398003511 ATP binding site [chemical binding]; other site 290398003512 Q-loop/lid; other site 290398003513 ABC transporter signature motif; other site 290398003514 Walker B; other site 290398003515 D-loop; other site 290398003516 H-loop/switch region; other site 290398003517 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 290398003518 putative dimer interface [polypeptide binding]; other site 290398003519 putative [2Fe-2S] cluster binding site [ion binding]; other site 290398003520 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290398003521 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 290398003522 ABC-ATPase subunit interface; other site 290398003523 dimer interface [polypeptide binding]; other site 290398003524 putative PBP binding regions; other site 290398003525 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290398003526 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 290398003527 ABC-ATPase subunit interface; other site 290398003528 dimer interface [polypeptide binding]; other site 290398003529 putative PBP binding regions; other site 290398003530 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 290398003531 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 290398003532 siderophore binding site; other site 290398003533 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 290398003534 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398003535 N-terminal plug; other site 290398003536 ligand-binding site [chemical binding]; other site 290398003537 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 290398003538 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398003539 N-terminal plug; other site 290398003540 ligand-binding site [chemical binding]; other site 290398003541 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 290398003542 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 290398003543 homodimer interface [polypeptide binding]; other site 290398003544 homotetramer interface [polypeptide binding]; other site 290398003545 active site pocket [active] 290398003546 cleavage site 290398003547 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290398003548 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290398003549 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 290398003550 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290398003551 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 290398003552 ABC-ATPase subunit interface; other site 290398003553 dimer interface [polypeptide binding]; other site 290398003554 putative PBP binding regions; other site 290398003555 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 290398003556 ABC-ATPase subunit interface; other site 290398003557 dimer interface [polypeptide binding]; other site 290398003558 putative PBP binding regions; other site 290398003559 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 290398003560 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 290398003561 siderophore binding site; other site 290398003562 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 290398003563 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290398003564 Walker A/P-loop; other site 290398003565 ATP binding site [chemical binding]; other site 290398003566 Q-loop/lid; other site 290398003567 ABC transporter signature motif; other site 290398003568 Walker B; other site 290398003569 D-loop; other site 290398003570 H-loop/switch region; other site 290398003571 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290398003572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290398003573 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290398003574 DNA binding residues [nucleotide binding] 290398003575 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 290398003576 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 290398003577 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 290398003578 IucA / IucC family; Region: IucA_IucC; pfam04183 290398003579 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 290398003580 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 290398003581 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398003582 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 290398003583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398003584 catalytic residue [active] 290398003585 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 290398003586 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398003587 N-terminal plug; other site 290398003588 ligand-binding site [chemical binding]; other site 290398003589 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 290398003590 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 290398003591 PAS domain S-box; Region: sensory_box; TIGR00229 290398003592 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398003593 putative active site [active] 290398003594 heme pocket [chemical binding]; other site 290398003595 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290398003596 GAF domain; Region: GAF; pfam01590 290398003597 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398003598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398003599 metal binding site [ion binding]; metal-binding site 290398003600 active site 290398003601 I-site; other site 290398003602 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290398003603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398003604 active site 290398003605 phosphorylation site [posttranslational modification] 290398003606 intermolecular recognition site; other site 290398003607 dimerization interface [polypeptide binding]; other site 290398003608 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398003609 DNA binding site [nucleotide binding] 290398003610 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 290398003611 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398003612 dimer interface [polypeptide binding]; other site 290398003613 phosphorylation site [posttranslational modification] 290398003614 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398003615 ATP binding site [chemical binding]; other site 290398003616 Mg2+ binding site [ion binding]; other site 290398003617 G-X-G motif; other site 290398003618 Response regulator receiver domain; Region: Response_reg; pfam00072 290398003619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398003620 active site 290398003621 phosphorylation site [posttranslational modification] 290398003622 intermolecular recognition site; other site 290398003623 dimerization interface [polypeptide binding]; other site 290398003624 Hpt domain; Region: Hpt; pfam01627 290398003625 putative binding surface; other site 290398003626 active site 290398003627 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290398003628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398003629 active site 290398003630 phosphorylation site [posttranslational modification] 290398003631 intermolecular recognition site; other site 290398003632 dimerization interface [polypeptide binding]; other site 290398003633 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398003634 Walker A motif; other site 290398003635 ATP binding site [chemical binding]; other site 290398003636 Walker B motif; other site 290398003637 arginine finger; other site 290398003638 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290398003639 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 290398003640 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 290398003641 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 290398003642 Na binding site [ion binding]; other site 290398003643 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 290398003644 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 290398003645 oligomeric interface; other site 290398003646 putative active site [active] 290398003647 homodimer interface [polypeptide binding]; other site 290398003648 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 290398003649 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398003650 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 290398003651 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398003652 DctM-like transporters; Region: DctM; pfam06808 290398003653 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398003654 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 290398003655 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 290398003656 phosphate binding site [ion binding]; other site 290398003657 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398003658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398003659 DNA-binding site [nucleotide binding]; DNA binding site 290398003660 FCD domain; Region: FCD; pfam07729 290398003661 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 290398003662 Uncharacterized conserved protein [Function unknown]; Region: COG3410 290398003663 Predicted transcriptional regulator [Transcription]; Region: COG2932 290398003664 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 290398003665 Catalytic site [active] 290398003666 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 290398003667 homodimer interface [polypeptide binding]; other site 290398003668 chemical substrate binding site [chemical binding]; other site 290398003669 oligomer interface [polypeptide binding]; other site 290398003670 metal binding site [ion binding]; metal-binding site 290398003671 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 290398003672 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 290398003673 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398003674 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290398003675 Walker A motif; other site 290398003676 ATP binding site [chemical binding]; other site 290398003677 Walker B motif; other site 290398003678 arginine finger; other site 290398003679 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 290398003680 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 290398003681 active site 290398003682 catalytic triad [active] 290398003683 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290398003684 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 290398003685 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 290398003686 NADP binding site [chemical binding]; other site 290398003687 substrate binding site [chemical binding]; other site 290398003688 active site 290398003689 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 290398003690 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 290398003691 dimer interface [polypeptide binding]; other site 290398003692 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398003693 catalytic residue [active] 290398003694 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 290398003695 active site 290398003696 Mn binding site [ion binding]; other site 290398003697 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 290398003698 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 290398003699 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398003700 DNA-binding site [nucleotide binding]; DNA binding site 290398003701 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398003702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398003703 homodimer interface [polypeptide binding]; other site 290398003704 catalytic residue [active] 290398003705 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 290398003706 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290398003707 catalytic Zn binding site [ion binding]; other site 290398003708 structural Zn binding site [ion binding]; other site 290398003709 NAD(P) binding site [chemical binding]; other site 290398003710 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 290398003711 CoA binding domain; Region: CoA_binding_2; pfam13380 290398003712 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 290398003713 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 290398003714 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290398003715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398003716 Coenzyme A binding pocket [chemical binding]; other site 290398003717 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 290398003718 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 290398003719 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290398003720 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 290398003721 Soluble P-type ATPase [General function prediction only]; Region: COG4087 290398003722 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 290398003723 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 290398003724 Ligand Binding Site [chemical binding]; other site 290398003725 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 290398003726 Ligand Binding Site [chemical binding]; other site 290398003727 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 290398003728 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 290398003729 TrkA-N domain; Region: TrkA_N; pfam02254 290398003730 Anti-sigma-K factor rskA; Region: RskA; pfam10099 290398003731 RNA polymerase sigma factor; Provisional; Region: PRK12514 290398003732 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290398003733 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 290398003734 DNA binding residues [nucleotide binding] 290398003735 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398003736 dimerization interface [polypeptide binding]; other site 290398003737 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290398003738 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398003739 dimer interface [polypeptide binding]; other site 290398003740 putative CheW interface [polypeptide binding]; other site 290398003741 hydroperoxidase II; Provisional; Region: katE; PRK11249 290398003742 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 290398003743 tetramer interface [polypeptide binding]; other site 290398003744 heme binding pocket [chemical binding]; other site 290398003745 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 290398003746 domain interactions; other site 290398003747 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 290398003748 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398003749 DNA-binding site [nucleotide binding]; DNA binding site 290398003750 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398003751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398003752 homodimer interface [polypeptide binding]; other site 290398003753 catalytic residue [active] 290398003754 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398003755 Integral membrane protein TerC family; Region: TerC; cl10468 290398003756 Sulfatase; Region: Sulfatase; cl17466 290398003757 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290398003758 transmembrane helices; other site 290398003759 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 290398003760 TrkA-C domain; Region: TrkA_C; pfam02080 290398003761 TrkA-C domain; Region: TrkA_C; pfam02080 290398003762 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290398003763 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 290398003764 putative hydrolase; Provisional; Region: PRK11460 290398003765 Protein of unknown function (DUF938); Region: DUF938; pfam06080 290398003766 Predicted membrane protein [Function unknown]; Region: COG4640 290398003767 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 290398003768 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 290398003769 putative active site [active] 290398003770 PhoH-like protein; Region: PhoH; pfam02562 290398003771 Predicted acyl esterases [General function prediction only]; Region: COG2936 290398003772 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 290398003773 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 290398003774 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 290398003775 proposed catalytic triad [active] 290398003776 active site nucleophile [active] 290398003777 cyanophycin synthetase; Provisional; Region: PRK14016 290398003778 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 290398003779 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290398003780 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290398003781 isoaspartyl dipeptidase; Provisional; Region: PRK10657 290398003782 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 290398003783 active site 290398003784 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 290398003785 nitrite reductase subunit NirD; Provisional; Region: PRK14989 290398003786 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398003787 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398003788 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290398003789 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290398003790 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290398003791 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398003792 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 290398003793 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 290398003794 [4Fe-4S] binding site [ion binding]; other site 290398003795 molybdopterin cofactor binding site; other site 290398003796 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 290398003797 molybdopterin cofactor binding site; other site 290398003798 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290398003799 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 290398003800 active site 290398003801 SAM binding site [chemical binding]; other site 290398003802 homodimer interface [polypeptide binding]; other site 290398003803 Peptidase family C69; Region: Peptidase_C69; cl17793 290398003804 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290398003805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398003806 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 290398003807 dimerization interface [polypeptide binding]; other site 290398003808 substrate binding pocket [chemical binding]; other site 290398003809 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290398003810 EamA-like transporter family; Region: EamA; pfam00892 290398003811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398003812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398003813 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398003814 dimerization interface [polypeptide binding]; other site 290398003815 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 290398003816 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398003817 inhibitor-cofactor binding pocket; inhibition site 290398003818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398003819 catalytic residue [active] 290398003820 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 290398003821 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 290398003822 tetrameric interface [polypeptide binding]; other site 290398003823 NAD binding site [chemical binding]; other site 290398003824 catalytic residues [active] 290398003825 Uncharacterized conserved protein [Function unknown]; Region: COG3791 290398003826 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290398003827 Beta-lactamase; Region: Beta-lactamase; pfam00144 290398003828 gluconate 5-dehydrogenase; Provisional; Region: PRK07097 290398003829 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 290398003830 NADP binding site [chemical binding]; other site 290398003831 homodimer interface [polypeptide binding]; other site 290398003832 active site 290398003833 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 290398003834 catalytic triad [active] 290398003835 dimer interface [polypeptide binding]; other site 290398003836 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 290398003837 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398003838 putative substrate translocation pore; other site 290398003839 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 290398003840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398003841 active site 290398003842 phosphorylation site [posttranslational modification] 290398003843 intermolecular recognition site; other site 290398003844 dimerization interface [polypeptide binding]; other site 290398003845 ANTAR domain; Region: ANTAR; pfam03861 290398003846 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 290398003847 NMT1-like family; Region: NMT1_2; pfam13379 290398003848 putative peptidase; Provisional; Region: PRK11649 290398003849 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 290398003850 Peptidase family M23; Region: Peptidase_M23; pfam01551 290398003851 Pirin-related protein [General function prediction only]; Region: COG1741 290398003852 Pirin; Region: Pirin; pfam02678 290398003853 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 290398003854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398003855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398003856 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398003857 dimerization interface [polypeptide binding]; other site 290398003858 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 290398003859 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 290398003860 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 290398003861 putative dimer interface [polypeptide binding]; other site 290398003862 N-terminal domain interface [polypeptide binding]; other site 290398003863 putative substrate binding pocket (H-site) [chemical binding]; other site 290398003864 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 290398003865 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 290398003866 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 290398003867 ATP binding site [chemical binding]; other site 290398003868 Mg++ binding site [ion binding]; other site 290398003869 motif III; other site 290398003870 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398003871 nucleotide binding region [chemical binding]; other site 290398003872 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 290398003873 putative RNA binding site [nucleotide binding]; other site 290398003874 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 290398003875 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 290398003876 dimer interface [polypeptide binding]; other site 290398003877 NADP binding site [chemical binding]; other site 290398003878 catalytic residues [active] 290398003879 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 290398003880 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290398003881 dihydroxy-acid dehydratase; Validated; Region: PRK06131 290398003882 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 290398003883 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 290398003884 inhibitor binding site; inhibition site 290398003885 active site 290398003886 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 290398003887 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398003888 putative substrate translocation pore; other site 290398003889 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 290398003890 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398003891 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398003892 DNA-binding site [nucleotide binding]; DNA binding site 290398003893 FCD domain; Region: FCD; pfam07729 290398003894 acetylornithine deacetylase; Provisional; Region: PRK07522 290398003895 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 290398003896 metal binding site [ion binding]; metal-binding site 290398003897 putative dimer interface [polypeptide binding]; other site 290398003898 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 290398003899 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290398003900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398003901 AAA domain; Region: AAA_23; pfam13476 290398003902 Walker A/P-loop; other site 290398003903 ATP binding site [chemical binding]; other site 290398003904 Q-loop/lid; other site 290398003905 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398003906 ABC transporter signature motif; other site 290398003907 Walker B; other site 290398003908 D-loop; other site 290398003909 H-loop/switch region; other site 290398003910 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 290398003911 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290398003912 active site 290398003913 metal binding site [ion binding]; metal-binding site 290398003914 DNA binding site [nucleotide binding] 290398003915 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 290398003916 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 290398003917 Active_site [active] 290398003918 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 290398003919 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398003920 DNA-binding site [nucleotide binding]; DNA binding site 290398003921 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398003922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398003923 homodimer interface [polypeptide binding]; other site 290398003924 catalytic residue [active] 290398003925 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290398003926 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290398003927 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290398003928 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 290398003929 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398003930 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398003931 active site 290398003932 catalytic tetrad [active] 290398003933 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 290398003934 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 290398003935 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398003936 metabolite-proton symporter; Region: 2A0106; TIGR00883 290398003937 putative substrate translocation pore; other site 290398003938 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 290398003939 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 290398003940 catalytic triad [active] 290398003941 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 290398003942 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 290398003943 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398003944 inhibitor-cofactor binding pocket; inhibition site 290398003945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398003946 catalytic residue [active] 290398003947 AAA domain; Region: AAA_26; pfam13500 290398003948 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 290398003949 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 290398003950 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398003951 S-adenosylmethionine binding site [chemical binding]; other site 290398003952 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 290398003953 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 290398003954 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 290398003955 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290398003956 catalytic residue [active] 290398003957 biotin synthase; Provisional; Region: PRK15108 290398003958 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398003959 FeS/SAM binding site; other site 290398003960 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 290398003961 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 290398003962 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 290398003963 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 290398003964 Family description; Region: UvrD_C_2; pfam13538 290398003965 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 290398003966 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 290398003967 AAA domain; Region: AAA_30; pfam13604 290398003968 Family description; Region: UvrD_C_2; pfam13538 290398003969 Creatinine amidohydrolase; Region: Creatininase; pfam02633 290398003970 GTP cyclohydrolase; Provisional; Region: PRK08815 290398003971 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 290398003972 dimerization interface [polypeptide binding]; other site 290398003973 active site 290398003974 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 290398003975 RibD C-terminal domain; Region: RibD_C; cl17279 290398003976 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 290398003977 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 290398003978 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 290398003979 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398003980 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 290398003981 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 290398003982 putative NAD(P) binding site [chemical binding]; other site 290398003983 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 290398003984 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290398003985 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 290398003986 DNA binding residues [nucleotide binding] 290398003987 dimerization interface [polypeptide binding]; other site 290398003988 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290398003989 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290398003990 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 290398003991 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 290398003992 catalytic triad [active] 290398003993 agmatine deiminase; Provisional; Region: PRK13551 290398003994 agmatine deiminase; Region: agmatine_aguA; TIGR03380 290398003995 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 290398003996 hypothetical protein; Provisional; Region: PRK07036 290398003997 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398003998 inhibitor-cofactor binding pocket; inhibition site 290398003999 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398004000 catalytic residue [active] 290398004001 allantoate amidohydrolase; Reviewed; Region: PRK12893 290398004002 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 290398004003 active site 290398004004 metal binding site [ion binding]; metal-binding site 290398004005 dimer interface [polypeptide binding]; other site 290398004006 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 290398004007 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 290398004008 NAD(P) binding site [chemical binding]; other site 290398004009 catalytic residues [active] 290398004010 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290398004011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398004012 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398004013 dimerization interface [polypeptide binding]; other site 290398004014 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 290398004015 agmatine deiminase; Region: agmatine_aguA; TIGR03380 290398004016 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290398004017 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 290398004018 DNA binding residues [nucleotide binding] 290398004019 dimerization interface [polypeptide binding]; other site 290398004020 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290398004021 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290398004022 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 290398004023 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290398004024 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290398004025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398004026 dimer interface [polypeptide binding]; other site 290398004027 conserved gate region; other site 290398004028 putative PBP binding loops; other site 290398004029 ABC-ATPase subunit interface; other site 290398004030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398004031 ABC-ATPase subunit interface; other site 290398004032 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290398004033 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398004034 Walker A/P-loop; other site 290398004035 ATP binding site [chemical binding]; other site 290398004036 Q-loop/lid; other site 290398004037 ABC transporter signature motif; other site 290398004038 Walker B; other site 290398004039 D-loop; other site 290398004040 H-loop/switch region; other site 290398004041 TOBE domain; Region: TOBE_2; pfam08402 290398004042 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290398004043 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290398004044 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290398004045 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290398004046 Predicted deacylase [General function prediction only]; Region: COG3608 290398004047 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 290398004048 putative active site [active] 290398004049 Zn binding site [ion binding]; other site 290398004050 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 290398004051 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 290398004052 FMN binding site [chemical binding]; other site 290398004053 active site 290398004054 catalytic residues [active] 290398004055 substrate binding site [chemical binding]; other site 290398004056 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 290398004057 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 290398004058 putative active site [active] 290398004059 putative NTP binding site [chemical binding]; other site 290398004060 putative nucleic acid binding site [nucleotide binding]; other site 290398004061 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398004062 non-specific DNA binding site [nucleotide binding]; other site 290398004063 salt bridge; other site 290398004064 sequence-specific DNA binding site [nucleotide binding]; other site 290398004065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398004066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398004067 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 290398004068 putative effector binding pocket; other site 290398004069 dimerization interface [polypeptide binding]; other site 290398004070 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 290398004071 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290398004072 active site 290398004073 HIGH motif; other site 290398004074 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290398004075 active site 290398004076 KMSKS motif; other site 290398004077 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 290398004078 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 290398004079 dimer interface [polypeptide binding]; other site 290398004080 active site 290398004081 citrylCoA binding site [chemical binding]; other site 290398004082 NADH binding [chemical binding]; other site 290398004083 cationic pore residues; other site 290398004084 oxalacetate/citrate binding site [chemical binding]; other site 290398004085 coenzyme A binding site [chemical binding]; other site 290398004086 catalytic triad [active] 290398004087 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 290398004088 Iron-sulfur protein interface; other site 290398004089 proximal quinone binding site [chemical binding]; other site 290398004090 SdhD (CybS) interface [polypeptide binding]; other site 290398004091 proximal heme binding site [chemical binding]; other site 290398004092 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 290398004093 SdhC subunit interface [polypeptide binding]; other site 290398004094 proximal heme binding site [chemical binding]; other site 290398004095 cardiolipin binding site; other site 290398004096 Iron-sulfur protein interface; other site 290398004097 proximal quinone binding site [chemical binding]; other site 290398004098 L-aspartate oxidase; Provisional; Region: PRK06175 290398004099 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 290398004100 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 290398004101 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 290398004102 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 290398004103 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 290398004104 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 290398004105 TPP-binding site [chemical binding]; other site 290398004106 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 290398004107 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 290398004108 E3 interaction surface; other site 290398004109 lipoyl attachment site [posttranslational modification]; other site 290398004110 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 290398004111 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 290398004112 E3 interaction surface; other site 290398004113 lipoyl attachment site [posttranslational modification]; other site 290398004114 e3 binding domain; Region: E3_binding; pfam02817 290398004115 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 290398004116 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 290398004117 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 290398004118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398004119 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290398004120 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 290398004121 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 290398004122 CoA-ligase; Region: Ligase_CoA; pfam00549 290398004123 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 290398004124 CoA binding domain; Region: CoA_binding; pfam02629 290398004125 CoA-ligase; Region: Ligase_CoA; pfam00549 290398004126 Predicted integral membrane protein [Function unknown]; Region: COG0392 290398004127 Predicted deacetylase [General function prediction only]; Region: COG3233 290398004128 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 290398004129 putative active site [active] 290398004130 putative Zn binding site [ion binding]; other site 290398004131 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398004132 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 290398004133 exoribonuclease II; Provisional; Region: PRK05054 290398004134 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 290398004135 RNB domain; Region: RNB; pfam00773 290398004136 S1 RNA binding domain; Region: S1; pfam00575 290398004137 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 290398004138 NADH(P)-binding; Region: NAD_binding_10; pfam13460 290398004139 NAD(P) binding site [chemical binding]; other site 290398004140 putative active site [active] 290398004141 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 290398004142 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 290398004143 active site 290398004144 motif I; other site 290398004145 motif II; other site 290398004146 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398004147 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 290398004148 Ligand Binding Site [chemical binding]; other site 290398004149 hypothetical protein; Provisional; Region: PRK05415 290398004150 Domain of unknown function (DUF697); Region: DUF697; pfam05128 290398004151 YcjX-like family, DUF463; Region: DUF463; pfam04317 290398004152 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 290398004153 Transcriptional regulator; Region: Rrf2; pfam02082 290398004154 Transcriptional regulator; Region: Rrf2; cl17282 290398004155 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 290398004156 putative ABC transporter; Region: ycf24; CHL00085 290398004157 FeS assembly ATPase SufC; Region: sufC; TIGR01978 290398004158 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 290398004159 Walker A/P-loop; other site 290398004160 ATP binding site [chemical binding]; other site 290398004161 Q-loop/lid; other site 290398004162 ABC transporter signature motif; other site 290398004163 Walker B; other site 290398004164 D-loop; other site 290398004165 H-loop/switch region; other site 290398004166 FeS assembly protein SufD; Region: sufD; TIGR01981 290398004167 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 290398004168 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 290398004169 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 290398004170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290398004171 catalytic residue [active] 290398004172 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 290398004173 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 290398004174 putative active site [active] 290398004175 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 290398004176 RimK-like ATP-grasp domain; Region: RimK; pfam08443 290398004177 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 290398004178 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 290398004179 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 290398004180 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 290398004181 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 290398004182 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 290398004183 Ligand binding site; other site 290398004184 Putative Catalytic site; other site 290398004185 DXD motif; other site 290398004186 GtrA-like protein; Region: GtrA; pfam04138 290398004187 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 290398004188 Na binding site [ion binding]; other site 290398004189 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 290398004190 Proline dehydrogenase; Region: Pro_dh; pfam01619 290398004191 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 290398004192 Glutamate binding site [chemical binding]; other site 290398004193 NAD binding site [chemical binding]; other site 290398004194 catalytic residues [active] 290398004195 Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine; Region: Bromodomain; cl02556 290398004196 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290398004197 acetyllysine binding site; other site 290398004198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398004199 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398004200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398004201 FOG: CBS domain [General function prediction only]; Region: COG0517 290398004202 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 290398004203 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 290398004204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398004205 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290398004206 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 290398004207 catalytic triad [active] 290398004208 dimer interface [polypeptide binding]; other site 290398004209 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 290398004210 GSH binding site [chemical binding]; other site 290398004211 catalytic residues [active] 290398004212 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 290398004213 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 290398004214 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 290398004215 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 290398004216 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 290398004217 dimerization interface 3.5A [polypeptide binding]; other site 290398004218 active site 290398004219 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 290398004220 active site 290398004221 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 290398004222 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 290398004223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398004224 catalytic residue [active] 290398004225 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 290398004226 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 290398004227 substrate binding site [chemical binding]; other site 290398004228 active site 290398004229 catalytic residues [active] 290398004230 heterodimer interface [polypeptide binding]; other site 290398004231 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 290398004232 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 290398004233 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 290398004234 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290398004235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 290398004236 Sporulation related domain; Region: SPOR; pfam05036 290398004237 Colicin V production protein; Region: Colicin_V; pfam02674 290398004238 amidophosphoribosyltransferase; Provisional; Region: PRK09246 290398004239 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 290398004240 active site 290398004241 tetramer interface [polypeptide binding]; other site 290398004242 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398004243 active site 290398004244 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 290398004245 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 290398004246 homodimer interface [polypeptide binding]; other site 290398004247 substrate-cofactor binding pocket; other site 290398004248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398004249 catalytic residue [active] 290398004250 GTPase RsgA; Reviewed; Region: PRK12288 290398004251 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 290398004252 RNA binding site [nucleotide binding]; other site 290398004253 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 290398004254 GTPase/Zn-binding domain interface [polypeptide binding]; other site 290398004255 GTP/Mg2+ binding site [chemical binding]; other site 290398004256 G4 box; other site 290398004257 G5 box; other site 290398004258 G1 box; other site 290398004259 Switch I region; other site 290398004260 G2 box; other site 290398004261 G3 box; other site 290398004262 Switch II region; other site 290398004263 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 290398004264 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 290398004265 catalytic site [active] 290398004266 putative active site [active] 290398004267 putative substrate binding site [chemical binding]; other site 290398004268 dimer interface [polypeptide binding]; other site 290398004269 epoxyqueuosine reductase; Region: TIGR00276 290398004270 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 290398004271 4Fe-4S binding domain; Region: Fer4; pfam00037 290398004272 putative carbohydrate kinase; Provisional; Region: PRK10565 290398004273 Uncharacterized conserved protein [Function unknown]; Region: COG0062 290398004274 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 290398004275 putative substrate binding site [chemical binding]; other site 290398004276 putative ATP binding site [chemical binding]; other site 290398004277 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 290398004278 AMIN domain; Region: AMIN; pfam11741 290398004279 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290398004280 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 290398004281 active site 290398004282 metal binding site [ion binding]; metal-binding site 290398004283 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 290398004284 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290398004285 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 290398004286 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398004287 ATP binding site [chemical binding]; other site 290398004288 Mg2+ binding site [ion binding]; other site 290398004289 G-X-G motif; other site 290398004290 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 290398004291 ATP binding site [chemical binding]; other site 290398004292 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 290398004293 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 290398004294 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 290398004295 bacterial Hfq-like; Region: Hfq; cd01716 290398004296 hexamer interface [polypeptide binding]; other site 290398004297 Sm1 motif; other site 290398004298 RNA binding site [nucleotide binding]; other site 290398004299 Sm2 motif; other site 290398004300 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 290398004301 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 290398004302 HflX GTPase family; Region: HflX; cd01878 290398004303 G1 box; other site 290398004304 GTP/Mg2+ binding site [chemical binding]; other site 290398004305 Switch I region; other site 290398004306 G2 box; other site 290398004307 G3 box; other site 290398004308 Switch II region; other site 290398004309 G4 box; other site 290398004310 G5 box; other site 290398004311 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 290398004312 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 290398004313 HflK protein; Region: hflK; TIGR01933 290398004314 FtsH protease regulator HflC; Provisional; Region: PRK11029 290398004315 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 290398004316 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 290398004317 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 290398004318 dimer interface [polypeptide binding]; other site 290398004319 motif 1; other site 290398004320 active site 290398004321 motif 2; other site 290398004322 motif 3; other site 290398004323 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 290398004324 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 290398004325 GDP-binding site [chemical binding]; other site 290398004326 ACT binding site; other site 290398004327 IMP binding site; other site 290398004328 putative transporter; Provisional; Region: PRK10484 290398004329 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 290398004330 Na binding site [ion binding]; other site 290398004331 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 290398004332 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 290398004333 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 290398004334 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290398004335 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 290398004336 Ligand binding site; other site 290398004337 DXD motif; other site 290398004338 Acyltransferase family; Region: Acyl_transf_3; pfam01757 290398004339 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 290398004340 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398004341 inhibitor-cofactor binding pocket; inhibition site 290398004342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398004343 catalytic residue [active] 290398004344 succinic semialdehyde dehydrogenase; Region: PLN02278 290398004345 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 290398004346 tetramerization interface [polypeptide binding]; other site 290398004347 NAD(P) binding site [chemical binding]; other site 290398004348 catalytic residues [active] 290398004349 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 290398004350 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 290398004351 NlpC/P60 family; Region: NLPC_P60; pfam00877 290398004352 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 290398004353 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398004354 putative substrate translocation pore; other site 290398004355 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 290398004356 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 290398004357 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 290398004358 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 290398004359 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 290398004360 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 290398004361 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 290398004362 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 290398004363 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 290398004364 active site 290398004365 FMN binding site [chemical binding]; other site 290398004366 substrate binding site [chemical binding]; other site 290398004367 3Fe-4S cluster binding site [ion binding]; other site 290398004368 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 290398004369 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 290398004370 DNA binding residues [nucleotide binding] 290398004371 dimer interface [polypeptide binding]; other site 290398004372 metal binding site [ion binding]; metal-binding site 290398004373 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 290398004374 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 290398004375 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 290398004376 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 290398004377 active site 290398004378 metal binding site [ion binding]; metal-binding site 290398004379 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 290398004380 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 290398004381 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 290398004382 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 290398004383 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 290398004384 potential catalytic triad [active] 290398004385 conserved cys residue [active] 290398004386 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 290398004387 hypothetical protein; Provisional; Region: PRK03757 290398004388 CHASE3 domain; Region: CHASE3; pfam05227 290398004389 HAMP domain; Region: HAMP; pfam00672 290398004390 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398004391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398004392 metal binding site [ion binding]; metal-binding site 290398004393 active site 290398004394 I-site; other site 290398004395 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398004396 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398004397 active site 290398004398 catalytic tetrad [active] 290398004399 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290398004400 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290398004401 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 290398004402 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290398004403 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290398004404 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 290398004405 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398004406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398004407 homodimer interface [polypeptide binding]; other site 290398004408 catalytic residue [active] 290398004409 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 290398004410 aromatic arch; other site 290398004411 DCoH dimer interaction site [polypeptide binding]; other site 290398004412 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 290398004413 DCoH tetramer interaction site [polypeptide binding]; other site 290398004414 substrate binding site [chemical binding]; other site 290398004415 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 290398004416 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398004417 ATP binding site [chemical binding]; other site 290398004418 putative Mg++ binding site [ion binding]; other site 290398004419 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398004420 nucleotide binding region [chemical binding]; other site 290398004421 ATP-binding site [chemical binding]; other site 290398004422 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 290398004423 apolar tunnel; other site 290398004424 heme binding site [chemical binding]; other site 290398004425 dimerization interface [polypeptide binding]; other site 290398004426 recombination factor protein RarA; Reviewed; Region: PRK13342 290398004427 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398004428 Walker A motif; other site 290398004429 ATP binding site [chemical binding]; other site 290398004430 Walker B motif; other site 290398004431 arginine finger; other site 290398004432 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 290398004433 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 290398004434 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 290398004435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398004436 putative substrate translocation pore; other site 290398004437 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 290398004438 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 290398004439 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 290398004440 [4Fe-4S] binding site [ion binding]; other site 290398004441 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 290398004442 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 290398004443 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 290398004444 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 290398004445 molybdopterin cofactor binding site; other site 290398004446 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 290398004447 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 290398004448 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 290398004449 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 290398004450 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 290398004451 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 290398004452 active site 290398004453 DNA binding site [nucleotide binding] 290398004454 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 290398004455 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 290398004456 Catalytic site [active] 290398004457 transcriptional regulator; Provisional; Region: PRK10632 290398004458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398004459 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 290398004460 putative effector binding pocket; other site 290398004461 dimerization interface [polypeptide binding]; other site 290398004462 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 290398004463 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 290398004464 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 290398004465 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 290398004466 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 290398004467 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 290398004468 quinone interaction residues [chemical binding]; other site 290398004469 active site 290398004470 catalytic residues [active] 290398004471 FMN binding site [chemical binding]; other site 290398004472 substrate binding site [chemical binding]; other site 290398004473 Ribosome modulation factor; Region: RMF; pfam04957 290398004474 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 290398004475 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 290398004476 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290398004477 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398004478 S-adenosylmethionine binding site [chemical binding]; other site 290398004479 WGR domain; Region: WGR; cl01581 290398004480 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 290398004481 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 290398004482 ligand binding site [chemical binding]; other site 290398004483 NAD binding site [chemical binding]; other site 290398004484 catalytic site [active] 290398004485 homodimer interface [polypeptide binding]; other site 290398004486 heat shock protein HtpX; Provisional; Region: PRK05457 290398004487 aminotransferase AlaT; Validated; Region: PRK09265 290398004488 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398004489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398004490 homodimer interface [polypeptide binding]; other site 290398004491 catalytic residue [active] 290398004492 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 290398004493 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 290398004494 GTP/Mg2+ binding site [chemical binding]; other site 290398004495 G4 box; other site 290398004496 G5 box; other site 290398004497 G1 box; other site 290398004498 Switch I region; other site 290398004499 G2 box; other site 290398004500 G3 box; other site 290398004501 Switch II region; other site 290398004502 methionine sulfoxide reductase B; Provisional; Region: PRK00222 290398004503 SelR domain; Region: SelR; pfam01641 290398004504 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290398004505 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290398004506 Walker A/P-loop; other site 290398004507 ATP binding site [chemical binding]; other site 290398004508 Q-loop/lid; other site 290398004509 ABC transporter signature motif; other site 290398004510 Walker B; other site 290398004511 D-loop; other site 290398004512 H-loop/switch region; other site 290398004513 inner membrane transport permease; Provisional; Region: PRK15066 290398004514 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 290398004515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 290398004516 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 290398004517 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 290398004518 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 290398004519 putative FMN binding site [chemical binding]; other site 290398004520 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 290398004521 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 290398004522 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 290398004523 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 290398004524 active site 290398004525 DNA binding site [nucleotide binding] 290398004526 Int/Topo IB signature motif; other site 290398004527 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 290398004528 active site 290398004529 metal binding site [ion binding]; metal-binding site 290398004530 interdomain interaction site; other site 290398004531 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 290398004532 RNA polymerase sigma-B factor; Region: Sigma_B; TIGR02941 290398004533 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290398004534 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290398004535 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398004536 non-specific DNA binding site [nucleotide binding]; other site 290398004537 salt bridge; other site 290398004538 sequence-specific DNA binding site [nucleotide binding]; other site 290398004539 Predicted transcriptional regulator [Transcription]; Region: COG2932 290398004540 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 290398004541 Catalytic site [active] 290398004542 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 290398004543 DGQHR domain; Region: DGQHR; TIGR03187 290398004544 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 290398004545 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 290398004546 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 290398004547 active site 290398004548 DNA binding site [nucleotide binding] 290398004549 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 290398004550 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 290398004551 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 290398004552 Catalytic site [active] 290398004553 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 290398004554 Catalytic site [active] 290398004555 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 290398004556 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 290398004557 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 290398004558 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 290398004559 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 290398004560 Phage tail tube protein FII; Region: Phage_tube; cl01390 290398004561 major tail sheath protein; Provisional; Region: FI; PHA02560 290398004562 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 290398004563 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 290398004564 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 290398004565 Baseplate J-like protein; Region: Baseplate_J; cl01294 290398004566 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 290398004567 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 290398004568 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 290398004569 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 290398004570 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 290398004571 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 290398004572 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 290398004573 catalytic residues [active] 290398004574 Phage Tail Protein X; Region: Phage_tail_X; cl02088 290398004575 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 290398004576 terminase endonuclease subunit; Provisional; Region: M; PHA02537 290398004577 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 290398004578 Tetratricopeptide repeat; Region: TPR_1; pfam00515 290398004579 capsid protein; Provisional; Region: N; PHA02538 290398004580 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 290398004581 terminase ATPase subunit; Provisional; Region: P; PHA02535 290398004582 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 290398004583 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 290398004584 Phage-related protein [Function unknown]; Region: COG4695; cl01923 290398004585 Phage portal protein; Region: Phage_portal; pfam04860 290398004586 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 290398004587 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 290398004588 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 290398004589 Catalytic site [active] 290398004590 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 290398004591 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 290398004592 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 290398004593 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 290398004594 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290398004595 classical (c) SDRs; Region: SDR_c; cd05233 290398004596 NAD(P) binding site [chemical binding]; other site 290398004597 active site 290398004598 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 290398004599 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398004600 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398004601 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398004602 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398004603 dimerization interface [polypeptide binding]; other site 290398004604 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 290398004605 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 290398004606 putative ligand binding site [chemical binding]; other site 290398004607 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 290398004608 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 290398004609 TM-ABC transporter signature motif; other site 290398004610 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290398004611 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 290398004612 TM-ABC transporter signature motif; other site 290398004613 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 290398004614 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290398004615 Walker A/P-loop; other site 290398004616 ATP binding site [chemical binding]; other site 290398004617 Q-loop/lid; other site 290398004618 ABC transporter signature motif; other site 290398004619 Walker B; other site 290398004620 D-loop; other site 290398004621 H-loop/switch region; other site 290398004622 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290398004623 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290398004624 Walker A/P-loop; other site 290398004625 ATP binding site [chemical binding]; other site 290398004626 Q-loop/lid; other site 290398004627 ABC transporter signature motif; other site 290398004628 Walker B; other site 290398004629 D-loop; other site 290398004630 H-loop/switch region; other site 290398004631 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 290398004632 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290398004633 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398004634 dimerization interface [polypeptide binding]; other site 290398004635 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398004636 dimer interface [polypeptide binding]; other site 290398004637 putative CheW interface [polypeptide binding]; other site 290398004638 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 290398004639 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 290398004640 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 290398004641 putative NAD(P) binding site [chemical binding]; other site 290398004642 putative substrate binding site [chemical binding]; other site 290398004643 catalytic Zn binding site [ion binding]; other site 290398004644 structural Zn binding site [ion binding]; other site 290398004645 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 290398004646 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 290398004647 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 290398004648 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 290398004649 HSP70 interaction site [polypeptide binding]; other site 290398004650 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 290398004651 substrate binding site [polypeptide binding]; other site 290398004652 dimer interface [polypeptide binding]; other site 290398004653 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290398004654 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 290398004655 putative dimer interface [polypeptide binding]; other site 290398004656 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 290398004657 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 290398004658 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 290398004659 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 290398004660 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290398004661 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 290398004662 Walker A/P-loop; other site 290398004663 ATP binding site [chemical binding]; other site 290398004664 Q-loop/lid; other site 290398004665 ABC transporter signature motif; other site 290398004666 Walker B; other site 290398004667 D-loop; other site 290398004668 H-loop/switch region; other site 290398004669 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 290398004670 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290398004671 Walker A/P-loop; other site 290398004672 ATP binding site [chemical binding]; other site 290398004673 Q-loop/lid; other site 290398004674 ABC transporter signature motif; other site 290398004675 Walker B; other site 290398004676 D-loop; other site 290398004677 H-loop/switch region; other site 290398004678 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 290398004679 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 290398004680 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290398004681 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398004682 isocitrate dehydrogenase; Provisional; Region: PRK08997 290398004683 tartrate dehydrogenase; Region: TTC; TIGR02089 290398004684 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398004685 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398004686 active site 290398004687 catalytic tetrad [active] 290398004688 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290398004689 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290398004690 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398004691 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 290398004692 Predicted flavoproteins [General function prediction only]; Region: COG2081 290398004693 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290398004694 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 290398004695 YqjK-like protein; Region: YqjK; pfam13997 290398004696 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 290398004697 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 290398004698 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 290398004699 dimerization interface [polypeptide binding]; other site 290398004700 substrate binding site [chemical binding]; other site 290398004701 active site 290398004702 calcium binding site [ion binding]; other site 290398004703 hypothetical protein; Provisional; Region: PRK11281 290398004704 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 290398004705 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290398004706 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 290398004707 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 290398004708 RNA binding surface [nucleotide binding]; other site 290398004709 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398004710 S-adenosylmethionine binding site [chemical binding]; other site 290398004711 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 290398004712 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 290398004713 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 290398004714 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290398004715 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398004716 dimer interface [polypeptide binding]; other site 290398004717 phosphorylation site [posttranslational modification] 290398004718 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398004719 ATP binding site [chemical binding]; other site 290398004720 Mg2+ binding site [ion binding]; other site 290398004721 G-X-G motif; other site 290398004722 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290398004723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398004724 active site 290398004725 phosphorylation site [posttranslational modification] 290398004726 intermolecular recognition site; other site 290398004727 dimerization interface [polypeptide binding]; other site 290398004728 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398004729 DNA binding site [nucleotide binding] 290398004730 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 290398004731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398004732 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290398004733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 290398004734 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 290398004735 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 290398004736 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398004737 Walker A motif; other site 290398004738 ATP binding site [chemical binding]; other site 290398004739 Walker B motif; other site 290398004740 arginine finger; other site 290398004741 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 290398004742 hypothetical protein; Validated; Region: PRK00153 290398004743 recombination protein RecR; Reviewed; Region: recR; PRK00076 290398004744 RecR protein; Region: RecR; pfam02132 290398004745 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 290398004746 putative active site [active] 290398004747 putative metal-binding site [ion binding]; other site 290398004748 tetramer interface [polypeptide binding]; other site 290398004749 ribonuclease D; Region: rnd; TIGR01388 290398004750 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 290398004751 catalytic site [active] 290398004752 putative active site [active] 290398004753 putative substrate binding site [chemical binding]; other site 290398004754 HRDC domain; Region: HRDC; pfam00570 290398004755 YcgL domain; Region: YcgL; pfam05166 290398004756 hypothetical protein; Provisional; Region: PRK05170 290398004757 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 290398004758 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290398004759 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 290398004760 metal ion-dependent adhesion site (MIDAS); other site 290398004761 TIGR03503 family protein; Region: TIGR03503 290398004762 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 290398004763 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 290398004764 dimer interface [polypeptide binding]; other site 290398004765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398004766 catalytic residue [active] 290398004767 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 290398004768 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 290398004769 acyl-activating enzyme (AAE) consensus motif; other site 290398004770 putative AMP binding site [chemical binding]; other site 290398004771 putative active site [active] 290398004772 putative CoA binding site [chemical binding]; other site 290398004773 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 290398004774 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398004775 ATP binding site [chemical binding]; other site 290398004776 putative Mg++ binding site [ion binding]; other site 290398004777 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398004778 nucleotide binding region [chemical binding]; other site 290398004779 ATP-binding site [chemical binding]; other site 290398004780 Helicase associated domain (HA2); Region: HA2; pfam04408 290398004781 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 290398004782 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 290398004783 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 290398004784 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 290398004785 dimer interface [polypeptide binding]; other site 290398004786 active site 290398004787 CoA binding pocket [chemical binding]; other site 290398004788 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 290398004789 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 290398004790 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 290398004791 anti sigma factor interaction site; other site 290398004792 regulatory phosphorylation site [posttranslational modification]; other site 290398004793 HAMP domain; Region: HAMP; pfam00672 290398004794 dimerization interface [polypeptide binding]; other site 290398004795 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290398004796 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398004797 dimer interface [polypeptide binding]; other site 290398004798 putative CheW interface [polypeptide binding]; other site 290398004799 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 290398004800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398004801 putative substrate translocation pore; other site 290398004802 PBP superfamily domain; Region: PBP_like_2; cl17296 290398004803 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 290398004804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398004805 dimer interface [polypeptide binding]; other site 290398004806 conserved gate region; other site 290398004807 putative PBP binding loops; other site 290398004808 ABC-ATPase subunit interface; other site 290398004809 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 290398004810 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 290398004811 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398004812 dimer interface [polypeptide binding]; other site 290398004813 conserved gate region; other site 290398004814 putative PBP binding loops; other site 290398004815 ABC-ATPase subunit interface; other site 290398004816 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 290398004817 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 290398004818 Walker A/P-loop; other site 290398004819 ATP binding site [chemical binding]; other site 290398004820 Q-loop/lid; other site 290398004821 ABC transporter signature motif; other site 290398004822 Walker B; other site 290398004823 D-loop; other site 290398004824 H-loop/switch region; other site 290398004825 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 290398004826 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290398004827 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398004828 S-adenosylmethionine binding site [chemical binding]; other site 290398004829 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 290398004830 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 290398004831 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290398004832 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 290398004833 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 290398004834 Low molecular weight phosphatase family; Region: LMWPc; cl00105 290398004835 active site 290398004836 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290398004837 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290398004838 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 290398004839 dimerization interface [polypeptide binding]; other site 290398004840 putative DNA binding site [nucleotide binding]; other site 290398004841 putative Zn2+ binding site [ion binding]; other site 290398004842 arsenical pump membrane protein; Provisional; Region: PRK15445 290398004843 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 290398004844 transmembrane helices; other site 290398004845 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 290398004846 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 290398004847 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 290398004848 Na2 binding site [ion binding]; other site 290398004849 putative substrate binding site 1 [chemical binding]; other site 290398004850 Na binding site 1 [ion binding]; other site 290398004851 putative substrate binding site 2 [chemical binding]; other site 290398004852 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 290398004853 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 290398004854 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 290398004855 intersubunit interface [polypeptide binding]; other site 290398004856 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 290398004857 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 290398004858 homodimer interface [polypeptide binding]; other site 290398004859 Walker A motif; other site 290398004860 ATP binding site [chemical binding]; other site 290398004861 hydroxycobalamin binding site [chemical binding]; other site 290398004862 Walker B motif; other site 290398004863 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 290398004864 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290398004865 P-loop; other site 290398004866 Magnesium ion binding site [ion binding]; other site 290398004867 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290398004868 Magnesium ion binding site [ion binding]; other site 290398004869 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 290398004870 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 290398004871 DEAD-like helicases superfamily; Region: DEXDc2; smart00488 290398004872 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 290398004873 ATP binding site [chemical binding]; other site 290398004874 DEAD_2; Region: DEAD_2; pfam06733 290398004875 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 290398004876 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 290398004877 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 290398004878 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290398004879 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290398004880 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 290398004881 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398004882 FeS/SAM binding site; other site 290398004883 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 290398004884 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 290398004885 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398004886 N-terminal plug; other site 290398004887 ligand-binding site [chemical binding]; other site 290398004888 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 290398004889 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 290398004890 Nucleoside recognition; Region: Gate; pfam07670 290398004891 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 290398004892 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290398004893 ligand binding site [chemical binding]; other site 290398004894 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 290398004895 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 290398004896 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 290398004897 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 290398004898 putative active site [active] 290398004899 catalytic site [active] 290398004900 putative metal binding site [ion binding]; other site 290398004901 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 290398004902 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 290398004903 NADP binding site [chemical binding]; other site 290398004904 dimer interface [polypeptide binding]; other site 290398004905 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 290398004906 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 290398004907 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 290398004908 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290398004909 active site 290398004910 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 290398004911 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 290398004912 Protein export membrane protein; Region: SecD_SecF; cl14618 290398004913 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 290398004914 Protein export membrane protein; Region: SecD_SecF; cl14618 290398004915 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290398004916 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290398004917 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398004918 choline dehydrogenase; Validated; Region: PRK02106 290398004919 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 290398004920 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 290398004921 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 290398004922 NAD(P) binding site [chemical binding]; other site 290398004923 catalytic residues [active] 290398004924 transcriptional regulator BetI; Validated; Region: PRK00767 290398004925 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398004926 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 290398004927 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290398004928 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 290398004929 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 290398004930 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 290398004931 nucleotide binding pocket [chemical binding]; other site 290398004932 K-X-D-G motif; other site 290398004933 catalytic site [active] 290398004934 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 290398004935 carboxy-terminal protease; Provisional; Region: PRK11186 290398004936 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 290398004937 protein binding site [polypeptide binding]; other site 290398004938 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 290398004939 Catalytic dyad [active] 290398004940 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 290398004941 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 290398004942 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 290398004943 active site 290398004944 metal binding site [ion binding]; metal-binding site 290398004945 GTP-binding protein YchF; Reviewed; Region: PRK09601 290398004946 YchF GTPase; Region: YchF; cd01900 290398004947 G1 box; other site 290398004948 GTP/Mg2+ binding site [chemical binding]; other site 290398004949 Switch I region; other site 290398004950 G2 box; other site 290398004951 Switch II region; other site 290398004952 G3 box; other site 290398004953 G4 box; other site 290398004954 G5 box; other site 290398004955 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 290398004956 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 290398004957 putative active site [active] 290398004958 catalytic residue [active] 290398004959 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 290398004960 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 290398004961 5S rRNA interface [nucleotide binding]; other site 290398004962 CTC domain interface [polypeptide binding]; other site 290398004963 L16 interface [polypeptide binding]; other site 290398004964 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 290398004965 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 290398004966 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398004967 active site 290398004968 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 290398004969 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 290398004970 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 290398004971 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 290398004972 TPR repeat; Region: TPR_11; pfam13414 290398004973 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 290398004974 binding surface 290398004975 TPR motif; other site 290398004976 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 290398004977 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 290398004978 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 290398004979 tRNA; other site 290398004980 putative tRNA binding site [nucleotide binding]; other site 290398004981 putative NADP binding site [chemical binding]; other site 290398004982 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 290398004983 peptide chain release factor 1; Validated; Region: prfA; PRK00591 290398004984 This domain is found in peptide chain release factors; Region: PCRF; smart00937 290398004985 RF-1 domain; Region: RF-1; pfam00472 290398004986 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 290398004987 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398004988 S-adenosylmethionine binding site [chemical binding]; other site 290398004989 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 290398004990 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 290398004991 putative DNA binding site [nucleotide binding]; other site 290398004992 putative Zn2+ binding site [ion binding]; other site 290398004993 AsnC family; Region: AsnC_trans_reg; pfam01037 290398004994 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 290398004995 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 290398004996 ATP binding site [chemical binding]; other site 290398004997 substrate interface [chemical binding]; other site 290398004998 hypothetical protein; Provisional; Region: PRK11280 290398004999 6-phosphofructokinase; Provisional; Region: PRK14072 290398005000 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 290398005001 active site 290398005002 ADP/pyrophosphate binding site [chemical binding]; other site 290398005003 dimerization interface [polypeptide binding]; other site 290398005004 allosteric effector site; other site 290398005005 fructose-1,6-bisphosphate binding site; other site 290398005006 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 290398005007 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290398005008 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290398005009 aromatic acid decarboxylase; Validated; Region: PRK05920 290398005010 Flavoprotein; Region: Flavoprotein; pfam02441 290398005011 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398005012 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 290398005013 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 290398005014 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 290398005015 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 290398005016 active site 290398005017 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 290398005018 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398005019 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 290398005020 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 290398005021 putative catalytic cysteine [active] 290398005022 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 290398005023 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 290398005024 active site 290398005025 (T/H)XGH motif; other site 290398005026 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 290398005027 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 290398005028 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 290398005029 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290398005030 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290398005031 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 290398005032 Transglycosylase SLT domain; Region: SLT_2; pfam13406 290398005033 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290398005034 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290398005035 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 290398005036 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 290398005037 Sporulation related domain; Region: SPOR; pfam05036 290398005038 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 290398005039 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290398005040 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 290398005041 Protein of unknown function (DUF493); Region: DUF493; pfam04359 290398005042 lipoate-protein ligase B; Provisional; Region: PRK14342 290398005043 lipoyl synthase; Provisional; Region: PRK05481 290398005044 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398005045 FeS/SAM binding site; other site 290398005046 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 290398005047 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 290398005048 putative NAD(P) binding site [chemical binding]; other site 290398005049 dimer interface [polypeptide binding]; other site 290398005050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398005051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398005052 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 290398005053 putative dimerization interface [polypeptide binding]; other site 290398005054 pyruvate carboxylase subunit A; Validated; Region: PRK07178 290398005055 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290398005056 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290398005057 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290398005058 pyruvate carboxylase subunit B; Validated; Region: PRK09282 290398005059 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 290398005060 active site 290398005061 catalytic residues [active] 290398005062 metal binding site [ion binding]; metal-binding site 290398005063 homodimer binding site [polypeptide binding]; other site 290398005064 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 290398005065 carboxyltransferase (CT) interaction site; other site 290398005066 biotinylation site [posttranslational modification]; other site 290398005067 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 290398005068 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 290398005069 active site 290398005070 dimer interfaces [polypeptide binding]; other site 290398005071 catalytic residues [active] 290398005072 pyruvate kinase; Provisional; Region: PRK05826 290398005073 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 290398005074 domain interfaces; other site 290398005075 active site 290398005076 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 290398005077 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 290398005078 active site 290398005079 interdomain interaction site; other site 290398005080 putative metal-binding site [ion binding]; other site 290398005081 nucleotide binding site [chemical binding]; other site 290398005082 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 290398005083 domain I; other site 290398005084 DNA binding groove [nucleotide binding] 290398005085 phosphate binding site [ion binding]; other site 290398005086 domain II; other site 290398005087 domain III; other site 290398005088 nucleotide binding site [chemical binding]; other site 290398005089 catalytic site [active] 290398005090 domain IV; other site 290398005091 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 290398005092 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 290398005093 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 290398005094 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 290398005095 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 290398005096 substrate binding site [chemical binding]; other site 290398005097 THF binding site; other site 290398005098 zinc-binding site [ion binding]; other site 290398005099 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290398005100 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290398005101 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290398005102 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290398005103 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 290398005104 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 290398005105 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398005106 ATP binding site [chemical binding]; other site 290398005107 putative Mg++ binding site [ion binding]; other site 290398005108 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398005109 nucleotide binding region [chemical binding]; other site 290398005110 ATP-binding site [chemical binding]; other site 290398005111 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 290398005112 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 290398005113 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 290398005114 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290398005115 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 290398005116 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 290398005117 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 290398005118 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 290398005119 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 290398005120 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 290398005121 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 290398005122 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 290398005123 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398005124 catalytic loop [active] 290398005125 iron binding site [ion binding]; other site 290398005126 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 290398005127 FAD binding pocket [chemical binding]; other site 290398005128 FAD binding motif [chemical binding]; other site 290398005129 phosphate binding motif [ion binding]; other site 290398005130 beta-alpha-beta structure motif; other site 290398005131 NAD binding pocket [chemical binding]; other site 290398005132 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 290398005133 ApbE family; Region: ApbE; pfam02424 290398005134 Protein of unknown function (DUF539); Region: DUF539; pfam04400 290398005135 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 290398005136 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290398005137 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398005138 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290398005139 YrhK-like protein; Region: YrhK; pfam14145 290398005140 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 290398005141 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 290398005142 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 290398005143 putative active site; other site 290398005144 catalytic triad [active] 290398005145 putative dimer interface [polypeptide binding]; other site 290398005146 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 290398005147 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 290398005148 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 290398005149 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290398005150 FtsX-like permease family; Region: FtsX; pfam02687 290398005151 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 290398005152 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290398005153 Walker A/P-loop; other site 290398005154 ATP binding site [chemical binding]; other site 290398005155 Q-loop/lid; other site 290398005156 ABC transporter signature motif; other site 290398005157 Walker B; other site 290398005158 D-loop; other site 290398005159 H-loop/switch region; other site 290398005160 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 290398005161 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 290398005162 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 290398005163 Competence protein; Region: Competence; pfam03772 290398005164 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290398005165 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 290398005166 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290398005167 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 290398005168 Walker A/P-loop; other site 290398005169 ATP binding site [chemical binding]; other site 290398005170 Q-loop/lid; other site 290398005171 ABC transporter signature motif; other site 290398005172 Walker B; other site 290398005173 D-loop; other site 290398005174 H-loop/switch region; other site 290398005175 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 290398005176 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 290398005177 Uncharacterized conserved protein [Function unknown]; Region: COG2835 290398005178 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 290398005179 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 290398005180 Ligand binding site; other site 290398005181 oligomer interface; other site 290398005182 Low molecular weight phosphatase family; Region: LMWPc; cd00115 290398005183 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 290398005184 active site 290398005185 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 290398005186 FAD binding domain; Region: FAD_binding_4; pfam01565 290398005187 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 290398005188 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 290398005189 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 290398005190 homodimer interface [polypeptide binding]; other site 290398005191 oligonucleotide binding site [chemical binding]; other site 290398005192 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 290398005193 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 290398005194 RNA binding surface [nucleotide binding]; other site 290398005195 Envelope glycoprotein GP120; Region: GP120; pfam00516 290398005196 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290398005197 active site 290398005198 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290398005199 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398005200 motif II; other site 290398005201 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 290398005202 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 290398005203 tandem repeat interface [polypeptide binding]; other site 290398005204 oligomer interface [polypeptide binding]; other site 290398005205 active site residues [active] 290398005206 Maf-like protein; Region: Maf; pfam02545 290398005207 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 290398005208 active site 290398005209 dimer interface [polypeptide binding]; other site 290398005210 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 290398005211 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 290398005212 putative phosphate acyltransferase; Provisional; Region: PRK05331 290398005213 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 290398005214 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 290398005215 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 290398005216 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 290398005217 NAD(P) binding site [chemical binding]; other site 290398005218 homotetramer interface [polypeptide binding]; other site 290398005219 homodimer interface [polypeptide binding]; other site 290398005220 active site 290398005221 acyl carrier protein; Provisional; Region: acpP; PRK00982 290398005222 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 290398005223 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 290398005224 dimer interface [polypeptide binding]; other site 290398005225 active site 290398005226 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290398005227 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 290398005228 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398005229 catalytic residue [active] 290398005230 YceG-like family; Region: YceG; pfam02618 290398005231 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 290398005232 dimerization interface [polypeptide binding]; other site 290398005233 thymidylate kinase; Validated; Region: tmk; PRK00698 290398005234 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 290398005235 TMP-binding site; other site 290398005236 ATP-binding site [chemical binding]; other site 290398005237 DNA polymerase III subunit delta'; Validated; Region: PRK05707 290398005238 DNA polymerase III subunit delta'; Validated; Region: PRK08485 290398005239 PilZ domain; Region: PilZ; cl01260 290398005240 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 290398005241 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 290398005242 active site 290398005243 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 290398005244 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 290398005245 Part of AAA domain; Region: AAA_19; pfam13245 290398005246 Family description; Region: UvrD_C_2; pfam13538 290398005247 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 290398005248 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290398005249 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 290398005250 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 290398005251 Ligand binding site [chemical binding]; other site 290398005252 Electron transfer flavoprotein domain; Region: ETF; pfam01012 290398005253 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 290398005254 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 290398005255 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290398005256 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 290398005257 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 290398005258 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 290398005259 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 290398005260 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 290398005261 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 290398005262 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 290398005263 putative catalytic site [active] 290398005264 putative phosphate binding site [ion binding]; other site 290398005265 active site 290398005266 metal binding site A [ion binding]; metal-binding site 290398005267 DNA binding site [nucleotide binding] 290398005268 putative AP binding site [nucleotide binding]; other site 290398005269 putative metal binding site B [ion binding]; other site 290398005270 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 290398005271 DEAD-like helicases superfamily; Region: DEXDc; smart00487 290398005272 ATP binding site [chemical binding]; other site 290398005273 Mg++ binding site [ion binding]; other site 290398005274 motif III; other site 290398005275 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398005276 nucleotide binding region [chemical binding]; other site 290398005277 ATP-binding site [chemical binding]; other site 290398005278 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 290398005279 DEAD/DEAH box helicase; Region: DEAD; pfam00270 290398005280 DEAD_2; Region: DEAD_2; pfam06733 290398005281 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 290398005282 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 290398005283 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 290398005284 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 290398005285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290398005286 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 290398005287 DNA binding residues [nucleotide binding] 290398005288 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 290398005289 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 290398005290 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290398005291 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 290398005292 protein binding site [polypeptide binding]; other site 290398005293 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 290398005294 protein binding site [polypeptide binding]; other site 290398005295 GTP-binding protein LepA; Provisional; Region: PRK05433 290398005296 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 290398005297 G1 box; other site 290398005298 putative GEF interaction site [polypeptide binding]; other site 290398005299 GTP/Mg2+ binding site [chemical binding]; other site 290398005300 Switch I region; other site 290398005301 G2 box; other site 290398005302 G3 box; other site 290398005303 Switch II region; other site 290398005304 G4 box; other site 290398005305 G5 box; other site 290398005306 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 290398005307 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 290398005308 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 290398005309 signal peptidase I; Provisional; Region: PRK10861 290398005310 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 290398005311 Catalytic site [active] 290398005312 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 290398005313 Catalytic site [active] 290398005314 ribonuclease III; Reviewed; Region: rnc; PRK00102 290398005315 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 290398005316 dimerization interface [polypeptide binding]; other site 290398005317 active site 290398005318 metal binding site [ion binding]; metal-binding site 290398005319 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 290398005320 dsRNA binding site [nucleotide binding]; other site 290398005321 GTPase Era; Reviewed; Region: era; PRK00089 290398005322 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 290398005323 G1 box; other site 290398005324 GTP/Mg2+ binding site [chemical binding]; other site 290398005325 Switch I region; other site 290398005326 G2 box; other site 290398005327 Switch II region; other site 290398005328 G3 box; other site 290398005329 G4 box; other site 290398005330 G5 box; other site 290398005331 KH domain; Region: KH_2; pfam07650 290398005332 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 290398005333 Recombination protein O N terminal; Region: RecO_N; pfam11967 290398005334 Recombination protein O C terminal; Region: RecO_C; pfam02565 290398005335 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 290398005336 active site 290398005337 hydrophilic channel; other site 290398005338 dimerization interface [polypeptide binding]; other site 290398005339 catalytic residues [active] 290398005340 active site lid [active] 290398005341 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290398005342 HAMP domain; Region: HAMP; pfam00672 290398005343 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398005344 dimer interface [polypeptide binding]; other site 290398005345 phosphorylation site [posttranslational modification] 290398005346 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398005347 ATP binding site [chemical binding]; other site 290398005348 Mg2+ binding site [ion binding]; other site 290398005349 G-X-G motif; other site 290398005350 Response regulator receiver domain; Region: Response_reg; pfam00072 290398005351 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398005352 active site 290398005353 phosphorylation site [posttranslational modification] 290398005354 intermolecular recognition site; other site 290398005355 dimerization interface [polypeptide binding]; other site 290398005356 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 290398005357 putative binding surface; other site 290398005358 active site 290398005359 cysteine synthase B; Region: cysM; TIGR01138 290398005360 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 290398005361 dimer interface [polypeptide binding]; other site 290398005362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398005363 catalytic residue [active] 290398005364 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 290398005365 TRAM domain; Region: TRAM; pfam01938 290398005366 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398005367 S-adenosylmethionine binding site [chemical binding]; other site 290398005368 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 290398005369 HD domain; Region: HD_4; pfam13328 290398005370 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290398005371 synthetase active site [active] 290398005372 NTP binding site [chemical binding]; other site 290398005373 metal binding site [ion binding]; metal-binding site 290398005374 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 290398005375 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 290398005376 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 290398005377 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 290398005378 homodimer interface [polypeptide binding]; other site 290398005379 metal binding site [ion binding]; metal-binding site 290398005380 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 290398005381 homodimer interface [polypeptide binding]; other site 290398005382 active site 290398005383 putative chemical substrate binding site [chemical binding]; other site 290398005384 metal binding site [ion binding]; metal-binding site 290398005385 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 290398005386 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 290398005387 Benzoate membrane transport protein; Region: BenE; pfam03594 290398005388 benzoate transporter; Region: benE; TIGR00843 290398005389 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 290398005390 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398005391 non-specific DNA binding site [nucleotide binding]; other site 290398005392 salt bridge; other site 290398005393 sequence-specific DNA binding site [nucleotide binding]; other site 290398005394 Cupin domain; Region: Cupin_2; pfam07883 290398005395 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 290398005396 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 290398005397 amidase catalytic site [active] 290398005398 Zn binding residues [ion binding]; other site 290398005399 substrate binding site [chemical binding]; other site 290398005400 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290398005401 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 290398005402 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398005403 dimerization interface [polypeptide binding]; other site 290398005404 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398005405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398005406 metal binding site [ion binding]; metal-binding site 290398005407 active site 290398005408 I-site; other site 290398005409 SlyX; Region: SlyX; cl01090 290398005410 Predicted permease [General function prediction only]; Region: COG2056 290398005411 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 290398005412 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290398005413 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290398005414 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398005415 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 290398005416 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 290398005417 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 290398005418 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 290398005419 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 290398005420 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 290398005421 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 290398005422 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 290398005423 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 290398005424 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 290398005425 ATP binding site [chemical binding]; other site 290398005426 Walker A motif; other site 290398005427 hexamer interface [polypeptide binding]; other site 290398005428 Walker B motif; other site 290398005429 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 290398005430 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290398005431 TPR repeat; Region: TPR_11; pfam13414 290398005432 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 290398005433 binding surface 290398005434 TPR motif; other site 290398005435 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 290398005436 Predicted membrane protein [Function unknown]; Region: COG4655 290398005437 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 290398005438 TadE-like protein; Region: TadE; pfam07811 290398005439 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398005440 metal binding site [ion binding]; metal-binding site 290398005441 active site 290398005442 I-site; other site 290398005443 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398005444 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290398005445 DNA-binding site [nucleotide binding]; DNA binding site 290398005446 RNA-binding motif; other site 290398005447 Domain of unknown function DUF21; Region: DUF21; pfam01595 290398005448 FOG: CBS domain [General function prediction only]; Region: COG0517 290398005449 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 290398005450 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 290398005451 active site 290398005452 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 290398005453 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 290398005454 active site 290398005455 NTP binding site [chemical binding]; other site 290398005456 metal binding triad [ion binding]; metal-binding site 290398005457 antibiotic binding site [chemical binding]; other site 290398005458 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398005459 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290398005460 putative substrate translocation pore; other site 290398005461 Predicted transcriptional regulator [Transcription]; Region: COG2944 290398005462 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398005463 non-specific DNA binding site [nucleotide binding]; other site 290398005464 salt bridge; other site 290398005465 sequence-specific DNA binding site [nucleotide binding]; other site 290398005466 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398005467 non-specific DNA binding site [nucleotide binding]; other site 290398005468 salt bridge; other site 290398005469 sequence-specific DNA binding site [nucleotide binding]; other site 290398005470 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 290398005471 HicB family; Region: HicB; pfam05534 290398005472 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 290398005473 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290398005474 catalytic residue [active] 290398005475 Chain length determinant protein; Region: Wzz; cl15801 290398005476 Chain length determinant protein; Region: Wzz; cl15801 290398005477 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290398005478 transmembrane helices; other site 290398005479 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 290398005480 TrkA-C domain; Region: TrkA_C; pfam02080 290398005481 TrkA-C domain; Region: TrkA_C; pfam02080 290398005482 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290398005483 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 290398005484 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290398005485 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 290398005486 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 290398005487 Active Sites [active] 290398005488 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 290398005489 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 290398005490 CysD dimerization site [polypeptide binding]; other site 290398005491 G1 box; other site 290398005492 putative GEF interaction site [polypeptide binding]; other site 290398005493 GTP/Mg2+ binding site [chemical binding]; other site 290398005494 Switch I region; other site 290398005495 G2 box; other site 290398005496 G3 box; other site 290398005497 Switch II region; other site 290398005498 G4 box; other site 290398005499 G5 box; other site 290398005500 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 290398005501 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 290398005502 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 290398005503 ligand-binding site [chemical binding]; other site 290398005504 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398005505 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 290398005506 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 290398005507 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 290398005508 active site 290398005509 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 290398005510 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 290398005511 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 290398005512 Substrate binding site; other site 290398005513 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 290398005514 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 290398005515 Bacterial sugar transferase; Region: Bac_transf; pfam02397 290398005516 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 290398005517 O-Antigen ligase; Region: Wzy_C; pfam04932 290398005518 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 290398005519 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 290398005520 putative ADP-binding pocket [chemical binding]; other site 290398005521 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290398005522 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290398005523 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398005524 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 290398005525 putative ADP-binding pocket [chemical binding]; other site 290398005526 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 290398005527 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 290398005528 active site 290398005529 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 290398005530 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 290398005531 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 290398005532 Low molecular weight phosphatase family; Region: LMWPc; cd00115 290398005533 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 290398005534 active site 290398005535 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398005536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398005537 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398005538 dimerization interface [polypeptide binding]; other site 290398005539 PII uridylyl-transferase; Provisional; Region: PRK03381 290398005540 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290398005541 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 290398005542 NAD(P) binding site [chemical binding]; other site 290398005543 catalytic residues [active] 290398005544 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 290398005545 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290398005546 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290398005547 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 290398005548 metal binding site [ion binding]; metal-binding site 290398005549 putative dimer interface [polypeptide binding]; other site 290398005550 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 290398005551 Right handed beta helix region; Region: Beta_helix; pfam13229 290398005552 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 290398005553 Bacterial sugar transferase; Region: Bac_transf; pfam02397 290398005554 polysaccharide export protein Wza; Provisional; Region: PRK15078 290398005555 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 290398005556 SLBB domain; Region: SLBB; pfam10531 290398005557 tyrosine kinase; Provisional; Region: PRK11519 290398005558 Chain length determinant protein; Region: Wzz; pfam02706 290398005559 Protein of unknown function, DUF601; Region: DUF601; pfam04642 290398005560 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 290398005561 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290398005562 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 290398005563 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290398005564 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 290398005565 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 290398005566 putative ADP-binding pocket [chemical binding]; other site 290398005567 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398005568 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 290398005569 putative ADP-binding pocket [chemical binding]; other site 290398005570 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 290398005571 Acyltransferase family; Region: Acyl_transf_3; pfam01757 290398005572 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 290398005573 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 290398005574 putative ADP-binding pocket [chemical binding]; other site 290398005575 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u5; cd10929 290398005576 putative active site [active] 290398005577 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 290398005578 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398005579 putative ADP-binding pocket [chemical binding]; other site 290398005580 UDP-glucose 4-epimerase; Region: PLN02240 290398005581 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 290398005582 NAD binding site [chemical binding]; other site 290398005583 homodimer interface [polypeptide binding]; other site 290398005584 active site 290398005585 substrate binding site [chemical binding]; other site 290398005586 Cache domain; Region: Cache_1; pfam02743 290398005587 PAS domain S-box; Region: sensory_box; TIGR00229 290398005588 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398005589 putative active site [active] 290398005590 heme pocket [chemical binding]; other site 290398005591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398005592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398005593 metal binding site [ion binding]; metal-binding site 290398005594 active site 290398005595 I-site; other site 290398005596 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 290398005597 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290398005598 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 290398005599 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 290398005600 putative ligand binding site [chemical binding]; other site 290398005601 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398005602 dimerization interface [polypeptide binding]; other site 290398005603 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290398005604 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398005605 dimer interface [polypeptide binding]; other site 290398005606 putative CheW interface [polypeptide binding]; other site 290398005607 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 290398005608 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 290398005609 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398005610 putative substrate translocation pore; other site 290398005611 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398005612 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 290398005613 classical (c) SDRs; Region: SDR_c; cd05233 290398005614 NAD(P) binding site [chemical binding]; other site 290398005615 active site 290398005616 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290398005617 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290398005618 nucleotide binding site [chemical binding]; other site 290398005619 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290398005620 DctM-like transporters; Region: DctM; pfam06808 290398005621 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398005622 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398005623 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398005624 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398005625 altronate oxidoreductase; Provisional; Region: PRK03643 290398005626 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290398005627 galactarate dehydratase; Region: galactar-dH20; TIGR03248 290398005628 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 290398005629 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 290398005630 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290398005631 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 290398005632 putative NAD(P) binding site [chemical binding]; other site 290398005633 catalytic Zn binding site [ion binding]; other site 290398005634 structural Zn binding site [ion binding]; other site 290398005635 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290398005636 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290398005637 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 290398005638 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 290398005639 NAD binding site [chemical binding]; other site 290398005640 homotetramer interface [polypeptide binding]; other site 290398005641 homodimer interface [polypeptide binding]; other site 290398005642 active site 290398005643 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398005644 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398005645 DNA-binding site [nucleotide binding]; DNA binding site 290398005646 FCD domain; Region: FCD; pfam07729 290398005647 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 290398005648 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 290398005649 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 290398005650 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 290398005651 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398005652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398005653 DNA-binding site [nucleotide binding]; DNA binding site 290398005654 FCD domain; Region: FCD; pfam07729 290398005655 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290398005656 FAD binding domain; Region: FAD_binding_4; pfam01565 290398005657 DctM-like transporters; Region: DctM; pfam06808 290398005658 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398005659 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290398005660 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398005661 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 290398005662 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 290398005663 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 290398005664 putative active site pocket [active] 290398005665 metal binding site [ion binding]; metal-binding site 290398005666 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 290398005667 galactarate dehydratase; Region: galactar-dH20; TIGR03248 290398005668 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 290398005669 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398005670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398005671 DNA-binding site [nucleotide binding]; DNA binding site 290398005672 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398005673 FCD domain; Region: FCD; pfam07729 290398005674 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290398005675 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 290398005676 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 290398005677 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 290398005678 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290398005679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398005680 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 290398005681 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 290398005682 putative active site [active] 290398005683 metal binding site [ion binding]; metal-binding site 290398005684 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 290398005685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398005686 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 290398005687 putative dimerization interface [polypeptide binding]; other site 290398005688 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290398005689 classical (c) SDRs; Region: SDR_c; cd05233 290398005690 NAD(P) binding site [chemical binding]; other site 290398005691 active site 290398005692 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290398005693 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 290398005694 putative NAD(P) binding site [chemical binding]; other site 290398005695 active site 290398005696 putative substrate binding site [chemical binding]; other site 290398005697 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 290398005698 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290398005699 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 290398005700 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 290398005701 Predicted membrane protein [Function unknown]; Region: COG2855 290398005702 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 290398005703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398005704 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 290398005705 putative dimerization interface [polypeptide binding]; other site 290398005706 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290398005707 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398005708 DNA-binding site [nucleotide binding]; DNA binding site 290398005709 UTRA domain; Region: UTRA; pfam07702 290398005710 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 290398005711 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 290398005712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398005713 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 290398005714 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 290398005715 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 290398005716 ligand binding site [chemical binding]; other site 290398005717 NAD binding site [chemical binding]; other site 290398005718 dimerization interface [polypeptide binding]; other site 290398005719 catalytic site [active] 290398005720 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 290398005721 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 290398005722 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 290398005723 putative ADP-binding pocket [chemical binding]; other site 290398005724 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 290398005725 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 290398005726 Substrate binding site; other site 290398005727 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 290398005728 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 290398005729 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 290398005730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 290398005731 Pirin-related protein [General function prediction only]; Region: COG1741 290398005732 Pirin; Region: Pirin; pfam02678 290398005733 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 290398005734 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 290398005735 Isochorismatase family; Region: Isochorismatase; pfam00857 290398005736 catalytic triad [active] 290398005737 dimer interface [polypeptide binding]; other site 290398005738 conserved cis-peptide bond; other site 290398005739 Pirin-related protein [General function prediction only]; Region: COG1741 290398005740 Pirin; Region: Pirin; pfam02678 290398005741 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 290398005742 LysR family transcriptional regulator; Provisional; Region: PRK14997 290398005743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398005744 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 290398005745 putative effector binding pocket; other site 290398005746 putative dimerization interface [polypeptide binding]; other site 290398005747 sensor protein BasS/PmrB; Provisional; Region: PRK10755 290398005748 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398005749 dimer interface [polypeptide binding]; other site 290398005750 phosphorylation site [posttranslational modification] 290398005751 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398005752 ATP binding site [chemical binding]; other site 290398005753 Mg2+ binding site [ion binding]; other site 290398005754 G-X-G motif; other site 290398005755 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290398005756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398005757 active site 290398005758 phosphorylation site [posttranslational modification] 290398005759 intermolecular recognition site; other site 290398005760 dimerization interface [polypeptide binding]; other site 290398005761 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398005762 DNA binding site [nucleotide binding] 290398005763 hypothetical protein; Provisional; Region: PRK07236 290398005764 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 290398005765 xanthine permease; Region: pbuX; TIGR03173 290398005766 guanine deaminase; Provisional; Region: PRK09228 290398005767 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 290398005768 active site 290398005769 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 290398005770 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 290398005771 XdhC Rossmann domain; Region: XdhC_C; pfam13478 290398005772 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 290398005773 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290398005774 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290398005775 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 290398005776 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398005777 catalytic loop [active] 290398005778 iron binding site [ion binding]; other site 290398005779 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290398005780 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 290398005781 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 290398005782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398005783 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 290398005784 LrgA family; Region: LrgA; pfam03788 290398005785 LrgB-like family; Region: LrgB; pfam04172 290398005786 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 290398005787 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 290398005788 transmembrane helices; other site 290398005789 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 290398005790 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 290398005791 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290398005792 metal binding site [ion binding]; metal-binding site 290398005793 putative dimer interface [polypeptide binding]; other site 290398005794 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290398005795 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290398005796 ligand binding site [chemical binding]; other site 290398005797 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 290398005798 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 290398005799 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 290398005800 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 290398005801 active site 290398005802 dimer interface [polypeptide binding]; other site 290398005803 motif 1; other site 290398005804 motif 2; other site 290398005805 motif 3; other site 290398005806 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 290398005807 anticodon binding site; other site 290398005808 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 290398005809 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 290398005810 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 290398005811 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 290398005812 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 290398005813 23S rRNA binding site [nucleotide binding]; other site 290398005814 L21 binding site [polypeptide binding]; other site 290398005815 L13 binding site [polypeptide binding]; other site 290398005816 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 290398005817 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 290398005818 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 290398005819 dimer interface [polypeptide binding]; other site 290398005820 motif 1; other site 290398005821 active site 290398005822 motif 2; other site 290398005823 motif 3; other site 290398005824 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 290398005825 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 290398005826 putative tRNA-binding site [nucleotide binding]; other site 290398005827 B3/4 domain; Region: B3_4; pfam03483 290398005828 tRNA synthetase B5 domain; Region: B5; smart00874 290398005829 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 290398005830 dimer interface [polypeptide binding]; other site 290398005831 motif 1; other site 290398005832 motif 3; other site 290398005833 motif 2; other site 290398005834 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 290398005835 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 290398005836 IHF dimer interface [polypeptide binding]; other site 290398005837 IHF - DNA interface [nucleotide binding]; other site 290398005838 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290398005839 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 290398005840 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 290398005841 FMN binding site [chemical binding]; other site 290398005842 active site 290398005843 substrate binding site [chemical binding]; other site 290398005844 catalytic residue [active] 290398005845 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 290398005846 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 290398005847 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398005848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398005849 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398005850 dimerization interface [polypeptide binding]; other site 290398005851 glycine dehydrogenase; Provisional; Region: PRK05367 290398005852 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 290398005853 tetramer interface [polypeptide binding]; other site 290398005854 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398005855 catalytic residue [active] 290398005856 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 290398005857 tetramer interface [polypeptide binding]; other site 290398005858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398005859 catalytic residue [active] 290398005860 glycine cleavage system protein H; Provisional; Region: PRK13380 290398005861 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 290398005862 lipoyl attachment site [posttranslational modification]; other site 290398005863 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 290398005864 amino acid carrier protein; Region: agcS; TIGR00835 290398005865 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 290398005866 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 290398005867 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290398005868 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 290398005869 active site 290398005870 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398005871 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 290398005872 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 290398005873 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290398005874 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290398005875 Peptidase family M23; Region: Peptidase_M23; pfam01551 290398005876 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290398005877 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 290398005878 putative acyl-acceptor binding pocket; other site 290398005879 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 290398005880 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 290398005881 acyl-activating enzyme (AAE) consensus motif; other site 290398005882 putative AMP binding site [chemical binding]; other site 290398005883 putative active site [active] 290398005884 putative CoA binding site [chemical binding]; other site 290398005885 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398005886 putative substrate translocation pore; other site 290398005887 putative MFS family transporter protein; Provisional; Region: PRK03633 290398005888 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 290398005889 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 290398005890 GSH binding site [chemical binding]; other site 290398005891 catalytic residues [active] 290398005892 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290398005893 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 290398005894 dimerization interface [polypeptide binding]; other site 290398005895 active site 290398005896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398005897 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 290398005898 NAD(P) binding site [chemical binding]; other site 290398005899 active site 290398005900 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 290398005901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398005902 active site 290398005903 phosphorylation site [posttranslational modification] 290398005904 intermolecular recognition site; other site 290398005905 dimerization interface [polypeptide binding]; other site 290398005906 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290398005907 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290398005908 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398005909 dimer interface [polypeptide binding]; other site 290398005910 phosphorylation site [posttranslational modification] 290398005911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398005912 ATP binding site [chemical binding]; other site 290398005913 Mg2+ binding site [ion binding]; other site 290398005914 G-X-G motif; other site 290398005915 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 290398005916 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 290398005917 G1 box; other site 290398005918 putative GEF interaction site [polypeptide binding]; other site 290398005919 GTP/Mg2+ binding site [chemical binding]; other site 290398005920 Switch I region; other site 290398005921 G2 box; other site 290398005922 G3 box; other site 290398005923 Switch II region; other site 290398005924 G4 box; other site 290398005925 G5 box; other site 290398005926 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 290398005927 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 290398005928 active site 290398005929 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 290398005930 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 290398005931 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 290398005932 metal-binding site [ion binding] 290398005933 OsmC-like protein; Region: OsmC; pfam02566 290398005934 excinuclease ABC subunit B; Provisional; Region: PRK05298 290398005935 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398005936 ATP binding site [chemical binding]; other site 290398005937 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398005938 nucleotide binding region [chemical binding]; other site 290398005939 ATP-binding site [chemical binding]; other site 290398005940 Ultra-violet resistance protein B; Region: UvrB; pfam12344 290398005941 UvrB/uvrC motif; Region: UVR; pfam02151 290398005942 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 290398005943 Fumarase C-terminus; Region: Fumerase_C; pfam05683 290398005944 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 290398005945 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 290398005946 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 290398005947 putative active site [active] 290398005948 catalytic site [active] 290398005949 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 290398005950 putative active site [active] 290398005951 catalytic site [active] 290398005952 cell density-dependent motility repressor; Provisional; Region: PRK10082 290398005953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398005954 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290398005955 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 290398005956 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290398005957 active site 290398005958 nucleotide binding site [chemical binding]; other site 290398005959 HIGH motif; other site 290398005960 KMSKS motif; other site 290398005961 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 290398005962 nudix motif; other site 290398005963 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 290398005964 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 290398005965 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 290398005966 active site 290398005967 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290398005968 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 290398005969 substrate binding site [chemical binding]; other site 290398005970 dimer interface [polypeptide binding]; other site 290398005971 ATP binding site [chemical binding]; other site 290398005972 glycerate dehydrogenase; Provisional; Region: PRK06487 290398005973 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 290398005974 putative ligand binding site [chemical binding]; other site 290398005975 putative NAD binding site [chemical binding]; other site 290398005976 catalytic site [active] 290398005977 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 290398005978 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 290398005979 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 290398005980 dimer interface [polypeptide binding]; other site 290398005981 anticodon binding site; other site 290398005982 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 290398005983 homodimer interface [polypeptide binding]; other site 290398005984 motif 1; other site 290398005985 active site 290398005986 motif 2; other site 290398005987 GAD domain; Region: GAD; pfam02938 290398005988 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290398005989 active site 290398005990 motif 3; other site 290398005991 hypothetical protein; Validated; Region: PRK00110 290398005992 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 290398005993 active site 290398005994 putative DNA-binding cleft [nucleotide binding]; other site 290398005995 dimer interface [polypeptide binding]; other site 290398005996 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 290398005997 RuvA N terminal domain; Region: RuvA_N; pfam01330 290398005998 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 290398005999 helix-hairpin-helix signature motif; other site 290398006000 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 290398006001 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 290398006002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398006003 Walker A motif; other site 290398006004 ATP binding site [chemical binding]; other site 290398006005 Walker B motif; other site 290398006006 arginine finger; other site 290398006007 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 290398006008 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 290398006009 active site 290398006010 TolQ protein; Region: tolQ; TIGR02796 290398006011 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 290398006012 TolR protein; Region: tolR; TIGR02801 290398006013 TolA protein; Region: tolA_full; TIGR02794 290398006014 TonB C terminal; Region: TonB_2; pfam13103 290398006015 translocation protein TolB; Provisional; Region: tolB; PRK00178 290398006016 TolB amino-terminal domain; Region: TolB_N; pfam04052 290398006017 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290398006018 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290398006019 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290398006020 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 290398006021 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290398006022 ligand binding site [chemical binding]; other site 290398006023 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 290398006024 Tetratricopeptide repeat; Region: TPR_6; pfam13174 290398006025 Tetratricopeptide repeat; Region: TPR_6; pfam13174 290398006026 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 290398006027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398006028 NAD(P) binding site [chemical binding]; other site 290398006029 active site 290398006030 phosphoglycolate phosphatase; Provisional; Region: PRK13222 290398006031 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398006032 motif II; other site 290398006033 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 290398006034 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398006035 S-adenosylmethionine binding site [chemical binding]; other site 290398006036 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 290398006037 active site 290398006038 tetramer interface; other site 290398006039 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 290398006040 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 290398006041 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 290398006042 superoxide dismutase; Provisional; Region: PRK10543 290398006043 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 290398006044 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 290398006045 Polycystin cation channel protein; Provisional; Region: PLN03223 290398006046 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 290398006047 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290398006048 Surface antigen; Region: Bac_surface_Ag; pfam01103 290398006049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 290398006050 Family of unknown function (DUF490); Region: DUF490; pfam04357 290398006051 hypothetical protein; Provisional; Region: PRK01617 290398006052 SEC-C motif; Region: SEC-C; pfam02810 290398006053 methionine sulfoxide reductase A; Provisional; Region: PRK00058 290398006054 putative hydrolase; Provisional; Region: PRK10985 290398006055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398006056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398006057 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290398006058 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 290398006059 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290398006060 Walker A/P-loop; other site 290398006061 ATP binding site [chemical binding]; other site 290398006062 Q-loop/lid; other site 290398006063 ABC transporter signature motif; other site 290398006064 Walker B; other site 290398006065 D-loop; other site 290398006066 H-loop/switch region; other site 290398006067 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 290398006068 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 290398006069 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290398006070 Walker A/P-loop; other site 290398006071 ATP binding site [chemical binding]; other site 290398006072 Q-loop/lid; other site 290398006073 ABC transporter signature motif; other site 290398006074 Walker B; other site 290398006075 D-loop; other site 290398006076 H-loop/switch region; other site 290398006077 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290398006078 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 290398006079 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290398006080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006081 dimer interface [polypeptide binding]; other site 290398006082 conserved gate region; other site 290398006083 putative PBP binding loops; other site 290398006084 ABC-ATPase subunit interface; other site 290398006085 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290398006086 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006087 dimer interface [polypeptide binding]; other site 290398006088 putative PBP binding loops; other site 290398006089 ABC-ATPase subunit interface; other site 290398006090 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 290398006091 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 290398006092 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 290398006093 active site clefts [active] 290398006094 zinc binding site [ion binding]; other site 290398006095 dimer interface [polypeptide binding]; other site 290398006096 glutathione reductase; Validated; Region: PRK06116 290398006097 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398006098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398006099 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290398006100 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290398006101 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398006102 Coenzyme A binding pocket [chemical binding]; other site 290398006103 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 290398006104 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398006105 inhibitor-cofactor binding pocket; inhibition site 290398006106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398006107 catalytic residue [active] 290398006108 Ectoine synthase; Region: Ectoine_synth; pfam06339 290398006109 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 290398006110 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 290398006111 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 290398006112 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 290398006113 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290398006114 metal binding site 2 [ion binding]; metal-binding site 290398006115 putative DNA binding helix; other site 290398006116 metal binding site 1 [ion binding]; metal-binding site 290398006117 dimer interface [polypeptide binding]; other site 290398006118 structural Zn2+ binding site [ion binding]; other site 290398006119 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 290398006120 Haemolytic domain; Region: Haemolytic; pfam01809 290398006121 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 290398006122 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 290398006123 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 290398006124 active site 290398006125 DNA binding site [nucleotide binding] 290398006126 Int/Topo IB signature motif; other site 290398006127 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 290398006128 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 290398006129 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 290398006130 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 290398006131 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 290398006132 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 290398006133 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 290398006134 substrate binding pocket [chemical binding]; other site 290398006135 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 290398006136 B12 binding site [chemical binding]; other site 290398006137 cobalt ligand [ion binding]; other site 290398006138 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 290398006139 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 290398006140 putative efflux protein, MATE family; Region: matE; TIGR00797 290398006141 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 290398006142 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290398006143 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290398006144 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 290398006145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 290398006146 Smr domain; Region: Smr; pfam01713 290398006147 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 290398006148 putative active site pocket [active] 290398006149 dimerization interface [polypeptide binding]; other site 290398006150 putative catalytic residue [active] 290398006151 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 290398006152 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 290398006153 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 290398006154 ArsC family; Region: ArsC; pfam03960 290398006155 catalytic residues [active] 290398006156 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290398006157 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290398006158 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 290398006159 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 290398006160 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 290398006161 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290398006162 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 290398006163 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 290398006164 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006165 dimer interface [polypeptide binding]; other site 290398006166 conserved gate region; other site 290398006167 putative PBP binding loops; other site 290398006168 ABC-ATPase subunit interface; other site 290398006169 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 290398006170 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 290398006171 Walker A/P-loop; other site 290398006172 ATP binding site [chemical binding]; other site 290398006173 Q-loop/lid; other site 290398006174 ABC transporter signature motif; other site 290398006175 Walker B; other site 290398006176 D-loop; other site 290398006177 H-loop/switch region; other site 290398006178 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 290398006179 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 290398006180 CoA binding domain; Region: CoA_binding_2; pfam13380 290398006181 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 290398006182 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 290398006183 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290398006184 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290398006185 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 290398006186 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 290398006187 putative active site [active] 290398006188 Zn binding site [ion binding]; other site 290398006189 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 290398006190 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398006191 non-specific DNA binding site [nucleotide binding]; other site 290398006192 salt bridge; other site 290398006193 sequence-specific DNA binding site [nucleotide binding]; other site 290398006194 Cupin domain; Region: Cupin_2; pfam07883 290398006195 amino acid transporter; Region: 2A0306; TIGR00909 290398006196 Helix-turn-helix domain; Region: HTH_17; pfam12728 290398006197 PBP superfamily domain; Region: PBP_like; pfam12727 290398006198 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 290398006199 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 290398006200 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 290398006201 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290398006202 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290398006203 4Fe-4S binding domain; Region: Fer4_6; pfam12837 290398006204 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290398006205 4Fe-4S binding domain; Region: Fer4; cl02805 290398006206 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290398006207 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 290398006208 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 290398006209 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 290398006210 [4Fe-4S] binding site [ion binding]; other site 290398006211 molybdopterin cofactor binding site; other site 290398006212 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 290398006213 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 290398006214 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 290398006215 molybdopterin cofactor binding site; other site 290398006216 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 290398006217 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 290398006218 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 290398006219 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 290398006220 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 290398006221 MPT binding site; other site 290398006222 trimer interface [polypeptide binding]; other site 290398006223 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 290398006224 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 290398006225 dimer interface [polypeptide binding]; other site 290398006226 putative functional site; other site 290398006227 putative MPT binding site; other site 290398006228 Protein of unknown function, DUF479; Region: DUF479; cl01203 290398006229 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 290398006230 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 290398006231 DsrH like protein; Region: DsrH; pfam04077 290398006232 DsrE/DsrF-like family; Region: DrsE; cl00672 290398006233 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 290398006234 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 290398006235 YccA-like proteins; Region: YccA_like; cd10433 290398006236 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 290398006237 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290398006238 active site 290398006239 metal binding site [ion binding]; metal-binding site 290398006240 potassium/proton antiporter; Reviewed; Region: PRK05326 290398006241 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 290398006242 TrkA-C domain; Region: TrkA_C; pfam02080 290398006243 Transporter associated domain; Region: CorC_HlyC; smart01091 290398006244 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290398006245 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398006246 Q-loop/lid; other site 290398006247 ABC transporter signature motif; other site 290398006248 Walker B; other site 290398006249 D-loop; other site 290398006250 H-loop/switch region; other site 290398006251 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290398006252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006253 dimer interface [polypeptide binding]; other site 290398006254 conserved gate region; other site 290398006255 putative PBP binding loops; other site 290398006256 ABC-ATPase subunit interface; other site 290398006257 NMT1/THI5 like; Region: NMT1; pfam09084 290398006258 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 290398006259 PGAP1-like protein; Region: PGAP1; pfam07819 290398006260 acyl-CoA esterase; Provisional; Region: PRK10673 290398006261 hypothetical protein; Provisional; Region: PRK11212 290398006262 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 290398006263 dimerization interface [polypeptide binding]; other site 290398006264 putative DNA binding site [nucleotide binding]; other site 290398006265 putative Zn2+ binding site [ion binding]; other site 290398006266 putative inner membrane peptidase; Provisional; Region: PRK11778 290398006267 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 290398006268 tandem repeat interface [polypeptide binding]; other site 290398006269 oligomer interface [polypeptide binding]; other site 290398006270 active site residues [active] 290398006271 SCP-2 sterol transfer family; Region: SCP2; pfam02036 290398006272 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 290398006273 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 290398006274 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 290398006275 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 290398006276 putative NADH binding site [chemical binding]; other site 290398006277 putative active site [active] 290398006278 nudix motif; other site 290398006279 putative metal binding site [ion binding]; other site 290398006280 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 290398006281 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 290398006282 active site 290398006283 catalytic site [active] 290398006284 substrate binding site [chemical binding]; other site 290398006285 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 290398006286 RNA/DNA hybrid binding site [nucleotide binding]; other site 290398006287 active site 290398006288 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 290398006289 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290398006290 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290398006291 catalytic residue [active] 290398006292 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290398006293 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290398006294 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 290398006295 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 290398006296 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 290398006297 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006298 dimer interface [polypeptide binding]; other site 290398006299 conserved gate region; other site 290398006300 putative PBP binding loops; other site 290398006301 ABC-ATPase subunit interface; other site 290398006302 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 290398006303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006304 dimer interface [polypeptide binding]; other site 290398006305 conserved gate region; other site 290398006306 ABC-ATPase subunit interface; other site 290398006307 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 290398006308 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290398006309 Walker A/P-loop; other site 290398006310 ATP binding site [chemical binding]; other site 290398006311 Q-loop/lid; other site 290398006312 ABC transporter signature motif; other site 290398006313 Walker B; other site 290398006314 D-loop; other site 290398006315 H-loop/switch region; other site 290398006316 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290398006317 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290398006318 Walker A/P-loop; other site 290398006319 ATP binding site [chemical binding]; other site 290398006320 Q-loop/lid; other site 290398006321 ABC transporter signature motif; other site 290398006322 Walker B; other site 290398006323 D-loop; other site 290398006324 H-loop/switch region; other site 290398006325 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 290398006326 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 290398006327 RNA binding surface [nucleotide binding]; other site 290398006328 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 290398006329 active site 290398006330 uracil binding [chemical binding]; other site 290398006331 C-N hydrolase family amidase; Provisional; Region: PRK10438 290398006332 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 290398006333 putative active site [active] 290398006334 catalytic triad [active] 290398006335 dimer interface [polypeptide binding]; other site 290398006336 multimer interface [polypeptide binding]; other site 290398006337 Predicted permeases [General function prediction only]; Region: RarD; COG2962 290398006338 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 290398006339 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398006340 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 290398006341 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 290398006342 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 290398006343 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 290398006344 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 290398006345 FliG C-terminal domain; Region: FliG_C; pfam01706 290398006346 flagellar assembly protein H; Validated; Region: fliH; PRK05687 290398006347 Flagellar assembly protein FliH; Region: FliH; pfam02108 290398006348 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 290398006349 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290398006350 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 290398006351 Walker A motif/ATP binding site; other site 290398006352 Walker B motif; other site 290398006353 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 290398006354 Flagellar FliJ protein; Region: FliJ; pfam02050 290398006355 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 290398006356 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 290398006357 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 290398006358 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 290398006359 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 290398006360 flagellar motor switch protein; Validated; Region: fliN; PRK05698 290398006361 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 290398006362 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 290398006363 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 290398006364 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 290398006365 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 290398006366 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 290398006367 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 290398006368 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 290398006369 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290398006370 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 290398006371 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 290398006372 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 290398006373 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 290398006374 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 290398006375 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 290398006376 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 290398006377 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 290398006378 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290398006379 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290398006380 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 290398006381 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 290398006382 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 290398006383 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290398006384 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 290398006385 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290398006386 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 290398006387 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 290398006388 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 290398006389 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 290398006390 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290398006391 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 290398006392 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 290398006393 SAF-like; Region: SAF_2; pfam13144 290398006394 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 290398006395 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 290398006396 FlgN protein; Region: FlgN; pfam05130 290398006397 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 290398006398 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 290398006399 active site 290398006400 purine riboside binding site [chemical binding]; other site 290398006401 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 290398006402 flagellin; Validated; Region: PRK06819 290398006403 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 290398006404 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 290398006405 TPR repeat; Region: TPR_11; pfam13414 290398006406 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 290398006407 TPR motif; other site 290398006408 binding surface 290398006409 TPR repeat; Region: TPR_11; pfam13414 290398006410 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 290398006411 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 290398006412 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 290398006413 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 290398006414 PilZ domain; Region: PilZ; pfam07238 290398006415 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 290398006416 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290398006417 Zn2+ binding site [ion binding]; other site 290398006418 Mg2+ binding site [ion binding]; other site 290398006419 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 290398006420 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398006421 dimerization interface [polypeptide binding]; other site 290398006422 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398006423 dimer interface [polypeptide binding]; other site 290398006424 putative CheW interface [polypeptide binding]; other site 290398006425 FlaG protein; Region: FlaG; pfam03646 290398006426 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 290398006427 high affinity sulphate transporter 1; Region: sulP; TIGR00815 290398006428 Sulfate transporter family; Region: Sulfate_transp; pfam00916 290398006429 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 290398006430 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290398006431 Predicted dehydrogenase [General function prediction only]; Region: COG0579 290398006432 carbon starvation induced protein; Validated; Region: PRK02963 290398006433 substrate binding pocket [chemical binding]; other site 290398006434 active site 290398006435 iron coordination sites [ion binding]; other site 290398006436 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 290398006437 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398006438 DNA-binding site [nucleotide binding]; DNA binding site 290398006439 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290398006440 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 290398006441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398006442 Walker A/P-loop; other site 290398006443 ATP binding site [chemical binding]; other site 290398006444 Q-loop/lid; other site 290398006445 ABC transporter signature motif; other site 290398006446 Walker B; other site 290398006447 D-loop; other site 290398006448 H-loop/switch region; other site 290398006449 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 290398006450 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290398006451 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 290398006452 Walker A/P-loop; other site 290398006453 ATP binding site [chemical binding]; other site 290398006454 Q-loop/lid; other site 290398006455 ABC transporter signature motif; other site 290398006456 Walker B; other site 290398006457 D-loop; other site 290398006458 H-loop/switch region; other site 290398006459 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 290398006460 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 290398006461 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 290398006462 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 290398006463 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 290398006464 Carbon starvation protein CstA; Region: CstA; pfam02554 290398006465 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 290398006466 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 290398006467 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 290398006468 P loop; other site 290398006469 Nucleotide binding site [chemical binding]; other site 290398006470 DTAP/Switch II; other site 290398006471 Switch I; other site 290398006472 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 290398006473 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290398006474 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290398006475 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 290398006476 Paraquat-inducible protein A; Region: PqiA; pfam04403 290398006477 Paraquat-inducible protein A; Region: PqiA; pfam04403 290398006478 paraquat-inducible protein B; Provisional; Region: PRK10807 290398006479 mce related protein; Region: MCE; pfam02470 290398006480 mce related protein; Region: MCE; pfam02470 290398006481 mce related protein; Region: MCE; pfam02470 290398006482 Protein of unknown function (DUF330); Region: DUF330; pfam03886 290398006483 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290398006484 GAF domain; Region: GAF; pfam01590 290398006485 PAS domain; Region: PAS; smart00091 290398006486 PAS fold; Region: PAS; pfam00989 290398006487 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398006488 putative active site [active] 290398006489 heme pocket [chemical binding]; other site 290398006490 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398006491 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398006492 metal binding site [ion binding]; metal-binding site 290398006493 active site 290398006494 I-site; other site 290398006495 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 290398006496 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290398006497 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 290398006498 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 290398006499 DNA binding residues [nucleotide binding] 290398006500 Flagellar protein FlhE; Region: FlhE; pfam06366 290398006501 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 290398006502 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290398006503 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 290398006504 FHIPEP family; Region: FHIPEP; pfam00771 290398006505 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 290398006506 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 290398006507 chemotaxis regulator CheZ; Provisional; Region: PRK11166 290398006508 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 290398006509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398006510 active site 290398006511 phosphorylation site [posttranslational modification] 290398006512 intermolecular recognition site; other site 290398006513 dimerization interface [polypeptide binding]; other site 290398006514 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 290398006515 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 290398006516 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398006517 dimerization interface [polypeptide binding]; other site 290398006518 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290398006519 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398006520 dimer interface [polypeptide binding]; other site 290398006521 putative CheW interface [polypeptide binding]; other site 290398006522 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 290398006523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398006524 active site 290398006525 phosphorylation site [posttranslational modification] 290398006526 intermolecular recognition site; other site 290398006527 dimerization interface [polypeptide binding]; other site 290398006528 CheB methylesterase; Region: CheB_methylest; pfam01339 290398006529 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 290398006530 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 290398006531 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398006532 S-adenosylmethionine binding site [chemical binding]; other site 290398006533 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398006534 PAS fold; Region: PAS_3; pfam08447 290398006535 putative active site [active] 290398006536 heme pocket [chemical binding]; other site 290398006537 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 290398006538 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398006539 dimerization interface [polypeptide binding]; other site 290398006540 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290398006541 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398006542 dimer interface [polypeptide binding]; other site 290398006543 putative CheW interface [polypeptide binding]; other site 290398006544 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 290398006545 putative CheA interaction surface; other site 290398006546 chemotaxis protein CheA; Provisional; Region: PRK10547 290398006547 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 290398006548 putative binding surface; other site 290398006549 active site 290398006550 CheY binding; Region: CheY-binding; pfam09078 290398006551 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 290398006552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398006553 ATP binding site [chemical binding]; other site 290398006554 Mg2+ binding site [ion binding]; other site 290398006555 G-X-G motif; other site 290398006556 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 290398006557 flagellar motor protein MotB; Validated; Region: motB; PRK09041 290398006558 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 290398006559 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290398006560 ligand binding site [chemical binding]; other site 290398006561 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 290398006562 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 290398006563 transcriptional activator FlhC; Provisional; Region: PRK12722 290398006564 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 290398006565 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 290398006566 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 290398006567 Flagellar protein FliT; Region: FliT; cl05125 290398006568 flagellar protein FliS; Validated; Region: fliS; PRK05685 290398006569 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 290398006570 flagellar capping protein; Reviewed; Region: fliD; PRK08032 290398006571 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 290398006572 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 290398006573 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 290398006574 active site 290398006575 homodimer interface [polypeptide binding]; other site 290398006576 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 290398006577 Ligand Binding Site [chemical binding]; other site 290398006578 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 290398006579 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398006580 FeS/SAM binding site; other site 290398006581 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 290398006582 Flagellin N-methylase; Region: FliB; pfam03692 290398006583 periplasmic folding chaperone; Provisional; Region: PRK10788 290398006584 SurA N-terminal domain; Region: SurA_N_3; cl07813 290398006585 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 290398006586 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 290398006587 IHF dimer interface [polypeptide binding]; other site 290398006588 IHF - DNA interface [nucleotide binding]; other site 290398006589 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 290398006590 Found in ATP-dependent protease La (LON); Region: LON; smart00464 290398006591 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398006592 Walker A motif; other site 290398006593 ATP binding site [chemical binding]; other site 290398006594 Walker B motif; other site 290398006595 arginine finger; other site 290398006596 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 290398006597 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 290398006598 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 290398006599 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398006600 Walker A motif; other site 290398006601 ATP binding site [chemical binding]; other site 290398006602 Walker B motif; other site 290398006603 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290398006604 Clp protease; Region: CLP_protease; pfam00574 290398006605 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 290398006606 oligomer interface [polypeptide binding]; other site 290398006607 active site residues [active] 290398006608 trigger factor; Provisional; Region: tig; PRK01490 290398006609 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 290398006610 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 290398006611 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 290398006612 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 290398006613 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 290398006614 homodimer interface [polypeptide binding]; other site 290398006615 NADP binding site [chemical binding]; other site 290398006616 substrate binding site [chemical binding]; other site 290398006617 S-ribosylhomocysteinase; Provisional; Region: PRK02260 290398006618 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 290398006619 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 290398006620 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 290398006621 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 290398006622 active site 290398006623 HIGH motif; other site 290398006624 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 290398006625 KMSKS motif; other site 290398006626 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 290398006627 tRNA binding surface [nucleotide binding]; other site 290398006628 anticodon binding site; other site 290398006629 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 290398006630 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290398006631 active site 290398006632 HIGH motif; other site 290398006633 nucleotide binding site [chemical binding]; other site 290398006634 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 290398006635 KMSKS motif; other site 290398006636 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 290398006637 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 290398006638 substrate binding site [chemical binding]; other site 290398006639 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 290398006640 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290398006641 putative active site [active] 290398006642 putative metal binding site [ion binding]; other site 290398006643 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 290398006644 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 290398006645 AAA ATPase domain; Region: AAA_16; pfam13191 290398006646 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 290398006647 active site 290398006648 dinuclear metal binding site [ion binding]; other site 290398006649 dimerization interface [polypeptide binding]; other site 290398006650 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 290398006651 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 290398006652 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 290398006653 substrate binding site [chemical binding]; other site 290398006654 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 290398006655 substrate binding site [chemical binding]; other site 290398006656 ligand binding site [chemical binding]; other site 290398006657 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 290398006658 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 290398006659 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 290398006660 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 290398006661 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 290398006662 putative active site [active] 290398006663 catalytic site [active] 290398006664 putative metal binding site [ion binding]; other site 290398006665 phosphoenolpyruvate synthase; Validated; Region: PRK06464 290398006666 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 290398006667 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290398006668 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 290398006669 PEP synthetase regulatory protein; Provisional; Region: PRK05339 290398006670 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 290398006671 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 290398006672 substrate binding site [chemical binding]; other site 290398006673 oxyanion hole (OAH) forming residues; other site 290398006674 trimer interface [polypeptide binding]; other site 290398006675 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 290398006676 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398006677 active site 290398006678 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290398006679 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290398006680 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 290398006681 beta-hexosaminidase; Provisional; Region: PRK05337 290398006682 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290398006683 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290398006684 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398006685 LexA repressor; Validated; Region: PRK00215 290398006686 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 290398006687 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 290398006688 Catalytic site [active] 290398006689 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 290398006690 active site 290398006691 DNA polymerase IV; Validated; Region: PRK02406 290398006692 DNA binding site [nucleotide binding] 290398006693 Predicted membrane protein [Function unknown]; Region: COG2119 290398006694 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 290398006695 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 290398006696 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 290398006697 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 290398006698 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 290398006699 putative active site [active] 290398006700 putative substrate binding site [chemical binding]; other site 290398006701 putative cosubstrate binding site; other site 290398006702 catalytic site [active] 290398006703 conserved hypothetical protein; Region: MG423; TIGR00649 290398006704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290398006705 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 290398006706 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 290398006707 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398006708 FeS/SAM binding site; other site 290398006709 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 290398006710 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 290398006711 MoaE homodimer interface [polypeptide binding]; other site 290398006712 MoaD interaction [polypeptide binding]; other site 290398006713 active site residues [active] 290398006714 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 290398006715 trimer interface [polypeptide binding]; other site 290398006716 dimer interface [polypeptide binding]; other site 290398006717 putative active site [active] 290398006718 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 290398006719 MoaE interaction surface [polypeptide binding]; other site 290398006720 MoeB interaction surface [polypeptide binding]; other site 290398006721 thiocarboxylated glycine; other site 290398006722 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 290398006723 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 290398006724 dimer interface [polypeptide binding]; other site 290398006725 putative functional site; other site 290398006726 putative MPT binding site; other site 290398006727 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 290398006728 Walker A motif; other site 290398006729 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 290398006730 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 290398006731 GTP binding site; other site 290398006732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398006733 Walker A/P-loop; other site 290398006734 ATP binding site [chemical binding]; other site 290398006735 ABC transporter; Region: ABC_tran; pfam00005 290398006736 Q-loop/lid; other site 290398006737 ABC transporter signature motif; other site 290398006738 Walker B; other site 290398006739 D-loop; other site 290398006740 H-loop/switch region; other site 290398006741 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006742 dimer interface [polypeptide binding]; other site 290398006743 conserved gate region; other site 290398006744 putative PBP binding loops; other site 290398006745 ABC-ATPase subunit interface; other site 290398006746 PBP superfamily domain; Region: PBP_like_2; pfam12849 290398006747 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290398006748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398006749 active site 290398006750 phosphorylation site [posttranslational modification] 290398006751 intermolecular recognition site; other site 290398006752 dimerization interface [polypeptide binding]; other site 290398006753 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398006754 Walker A motif; other site 290398006755 ATP binding site [chemical binding]; other site 290398006756 Walker B motif; other site 290398006757 arginine finger; other site 290398006758 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290398006759 HAMP domain; Region: HAMP; pfam00672 290398006760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290398006761 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398006762 dimer interface [polypeptide binding]; other site 290398006763 phosphorylation site [posttranslational modification] 290398006764 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398006765 ATP binding site [chemical binding]; other site 290398006766 G-X-G motif; other site 290398006767 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 290398006768 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398006769 non-specific DNA binding site [nucleotide binding]; other site 290398006770 salt bridge; other site 290398006771 sequence-specific DNA binding site [nucleotide binding]; other site 290398006772 Cupin domain; Region: Cupin_2; pfam07883 290398006773 uracil-xanthine permease; Region: ncs2; TIGR00801 290398006774 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290398006775 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 290398006776 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290398006777 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006778 dimer interface [polypeptide binding]; other site 290398006779 conserved gate region; other site 290398006780 ABC-ATPase subunit interface; other site 290398006781 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290398006782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006783 dimer interface [polypeptide binding]; other site 290398006784 conserved gate region; other site 290398006785 putative PBP binding loops; other site 290398006786 ABC-ATPase subunit interface; other site 290398006787 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 290398006788 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 290398006789 Walker A/P-loop; other site 290398006790 ATP binding site [chemical binding]; other site 290398006791 Q-loop/lid; other site 290398006792 ABC transporter signature motif; other site 290398006793 Walker B; other site 290398006794 D-loop; other site 290398006795 H-loop/switch region; other site 290398006796 TOBE domain; Region: TOBE_2; pfam08402 290398006797 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 290398006798 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 290398006799 Walker A/P-loop; other site 290398006800 ATP binding site [chemical binding]; other site 290398006801 Q-loop/lid; other site 290398006802 ABC transporter signature motif; other site 290398006803 Walker B; other site 290398006804 D-loop; other site 290398006805 H-loop/switch region; other site 290398006806 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398006807 active site 290398006808 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 290398006809 ligand binding site [chemical binding]; other site 290398006810 active site 290398006811 UGI interface [polypeptide binding]; other site 290398006812 catalytic site [active] 290398006813 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398006814 active site 290398006815 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398006816 active site 290398006817 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 290398006818 Lumazine binding domain; Region: Lum_binding; pfam00677 290398006819 Lumazine binding domain; Region: Lum_binding; pfam00677 290398006820 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 290398006821 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 290398006822 Walker A/P-loop; other site 290398006823 ATP binding site [chemical binding]; other site 290398006824 Q-loop/lid; other site 290398006825 ABC transporter signature motif; other site 290398006826 Walker B; other site 290398006827 D-loop; other site 290398006828 H-loop/switch region; other site 290398006829 NIL domain; Region: NIL; pfam09383 290398006830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398006831 dimer interface [polypeptide binding]; other site 290398006832 conserved gate region; other site 290398006833 ABC-ATPase subunit interface; other site 290398006834 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 290398006835 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 290398006836 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 290398006837 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 290398006838 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 290398006839 N- and C-terminal domain interface [polypeptide binding]; other site 290398006840 active site 290398006841 MgATP binding site [chemical binding]; other site 290398006842 catalytic site [active] 290398006843 metal binding site [ion binding]; metal-binding site 290398006844 glycerol binding site [chemical binding]; other site 290398006845 homotetramer interface [polypeptide binding]; other site 290398006846 homodimer interface [polypeptide binding]; other site 290398006847 FBP binding site [chemical binding]; other site 290398006848 protein IIAGlc interface [polypeptide binding]; other site 290398006849 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 290398006850 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 290398006851 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290398006852 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 290398006853 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 290398006854 putative catalytic site [active] 290398006855 putative phosphate binding site [ion binding]; other site 290398006856 putative metal binding site [ion binding]; other site 290398006857 fumarate hydratase; Reviewed; Region: fumC; PRK00485 290398006858 Class II fumarases; Region: Fumarase_classII; cd01362 290398006859 active site 290398006860 tetramer interface [polypeptide binding]; other site 290398006861 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 290398006862 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 290398006863 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398006864 Walker A motif; other site 290398006865 ATP binding site [chemical binding]; other site 290398006866 Walker B motif; other site 290398006867 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 290398006868 arginine finger; other site 290398006869 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290398006870 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290398006871 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 290398006872 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 290398006873 dimerization interface [polypeptide binding]; other site 290398006874 putative ATP binding site [chemical binding]; other site 290398006875 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 290398006876 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 290398006877 active site 290398006878 substrate binding site [chemical binding]; other site 290398006879 cosubstrate binding site; other site 290398006880 catalytic site [active] 290398006881 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 290398006882 trimer interface [polypeptide binding]; other site 290398006883 active site 290398006884 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 290398006885 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290398006886 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 290398006887 putative metal binding site [ion binding]; other site 290398006888 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 290398006889 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 290398006890 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 290398006891 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 290398006892 Ligand Binding Site [chemical binding]; other site 290398006893 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 290398006894 active site residue [active] 290398006895 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 290398006896 putative active site pocket [active] 290398006897 dimerization interface [polypeptide binding]; other site 290398006898 putative catalytic residue [active] 290398006899 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 290398006900 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 290398006901 active site 290398006902 HIGH motif; other site 290398006903 KMSKS motif; other site 290398006904 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 290398006905 tRNA binding surface [nucleotide binding]; other site 290398006906 anticodon binding site; other site 290398006907 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 290398006908 dimer interface [polypeptide binding]; other site 290398006909 putative tRNA-binding site [nucleotide binding]; other site 290398006910 ferredoxin; Provisional; Region: PRK08764 290398006911 Putative Fe-S cluster; Region: FeS; pfam04060 290398006912 4Fe-4S binding domain; Region: Fer4; pfam00037 290398006913 endonuclease III; Provisional; Region: PRK10702 290398006914 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290398006915 minor groove reading motif; other site 290398006916 helix-hairpin-helix signature motif; other site 290398006917 substrate binding pocket [chemical binding]; other site 290398006918 active site 290398006919 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 290398006920 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 290398006921 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398006922 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 290398006923 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 290398006924 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290398006925 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 290398006926 putative C-terminal domain interface [polypeptide binding]; other site 290398006927 putative GSH binding site (G-site) [chemical binding]; other site 290398006928 putative dimer interface [polypeptide binding]; other site 290398006929 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 290398006930 putative N-terminal domain interface [polypeptide binding]; other site 290398006931 putative dimer interface [polypeptide binding]; other site 290398006932 putative substrate binding pocket (H-site) [chemical binding]; other site 290398006933 Transcriptional activator HlyU; Region: HlyU; pfam10115 290398006934 argininosuccinate synthase; Provisional; Region: PRK13820 290398006935 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 290398006936 ANP binding site [chemical binding]; other site 290398006937 Substrate Binding Site II [chemical binding]; other site 290398006938 Substrate Binding Site I [chemical binding]; other site 290398006939 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 290398006940 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 290398006941 dimer interface [polypeptide binding]; other site 290398006942 catalytic site [active] 290398006943 putative active site [active] 290398006944 putative substrate binding site [chemical binding]; other site 290398006945 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 290398006946 putative GSH binding site [chemical binding]; other site 290398006947 catalytic residues [active] 290398006948 ornithine carbamoyltransferase; Provisional; Region: PRK00779 290398006949 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290398006950 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290398006951 response regulator; Provisional; Region: PRK09483 290398006952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398006953 active site 290398006954 phosphorylation site [posttranslational modification] 290398006955 intermolecular recognition site; other site 290398006956 dimerization interface [polypeptide binding]; other site 290398006957 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 290398006958 DNA binding residues [nucleotide binding] 290398006959 dimerization interface [polypeptide binding]; other site 290398006960 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 290398006961 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 290398006962 GIY-YIG motif/motif A; other site 290398006963 active site 290398006964 catalytic site [active] 290398006965 putative DNA binding site [nucleotide binding]; other site 290398006966 metal binding site [ion binding]; metal-binding site 290398006967 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 290398006968 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 290398006969 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 290398006970 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290398006971 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 290398006972 ligand binding site [chemical binding]; other site 290398006973 flexible hinge region; other site 290398006974 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 290398006975 putative switch regulator; other site 290398006976 non-specific DNA interactions [nucleotide binding]; other site 290398006977 DNA binding site [nucleotide binding] 290398006978 sequence specific DNA binding site [nucleotide binding]; other site 290398006979 putative cAMP binding site [chemical binding]; other site 290398006980 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398006981 Coenzyme A binding pocket [chemical binding]; other site 290398006982 prolyl-tRNA synthetase; Provisional; Region: PRK09194 290398006983 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 290398006984 dimer interface [polypeptide binding]; other site 290398006985 motif 1; other site 290398006986 active site 290398006987 motif 2; other site 290398006988 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 290398006989 putative deacylase active site [active] 290398006990 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290398006991 active site 290398006992 motif 3; other site 290398006993 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 290398006994 anticodon binding site; other site 290398006995 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290398006996 GAF domain; Region: GAF; pfam01590 290398006997 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398006998 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398006999 metal binding site [ion binding]; metal-binding site 290398007000 active site 290398007001 I-site; other site 290398007002 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398007003 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 290398007004 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 290398007005 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 290398007006 transcriptional activator RfaH; Region: RfaH; TIGR01955 290398007007 muropeptide transporter; Reviewed; Region: ampG; PRK11902 290398007008 muropeptide transporter; Validated; Region: ampG; cl17669 290398007009 SEC-C motif; Region: SEC-C; pfam02810 290398007010 DNA topoisomerase III; Provisional; Region: PRK07726 290398007011 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 290398007012 active site 290398007013 putative interdomain interaction site [polypeptide binding]; other site 290398007014 putative metal-binding site [ion binding]; other site 290398007015 putative nucleotide binding site [chemical binding]; other site 290398007016 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 290398007017 domain I; other site 290398007018 DNA binding groove [nucleotide binding] 290398007019 phosphate binding site [ion binding]; other site 290398007020 domain II; other site 290398007021 domain III; other site 290398007022 nucleotide binding site [chemical binding]; other site 290398007023 catalytic site [active] 290398007024 domain IV; other site 290398007025 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 290398007026 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 290398007027 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 290398007028 Predicted membrane protein [Function unknown]; Region: COG1289 290398007029 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 290398007030 Uncharacterized conserved protein [Function unknown]; Region: COG2938 290398007031 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 290398007032 IHF - DNA interface [nucleotide binding]; other site 290398007033 IHF dimer interface [polypeptide binding]; other site 290398007034 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 290398007035 tetratricopeptide repeat protein; Provisional; Region: PRK11788 290398007036 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 290398007037 TPR motif; other site 290398007038 binding surface 290398007039 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 290398007040 active site 290398007041 dimer interface [polypeptide binding]; other site 290398007042 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 290398007043 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 290398007044 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 290398007045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398007046 NAD(P) binding site [chemical binding]; other site 290398007047 active site 290398007048 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 290398007049 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 290398007050 oligomerisation interface [polypeptide binding]; other site 290398007051 mobile loop; other site 290398007052 roof hairpin; other site 290398007053 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 290398007054 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 290398007055 ring oligomerisation interface [polypeptide binding]; other site 290398007056 ATP/Mg binding site [chemical binding]; other site 290398007057 stacking interactions; other site 290398007058 hinge regions; other site 290398007059 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 290398007060 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290398007061 CCC1-related family of proteins; Region: CCC1_like; cl00278 290398007062 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 290398007063 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 290398007064 RNA binding site [nucleotide binding]; other site 290398007065 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 290398007066 RNA binding site [nucleotide binding]; other site 290398007067 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 290398007068 RNA binding site [nucleotide binding]; other site 290398007069 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 290398007070 RNA binding site [nucleotide binding]; other site 290398007071 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 290398007072 RNA binding site [nucleotide binding]; other site 290398007073 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 290398007074 RNA binding site [nucleotide binding]; other site 290398007075 cytidylate kinase; Provisional; Region: cmk; PRK00023 290398007076 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 290398007077 CMP-binding site; other site 290398007078 The sites determining sugar specificity; other site 290398007079 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 290398007080 prephenate dehydrogenase; Validated; Region: PRK08507 290398007081 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 290398007082 hinge; other site 290398007083 active site 290398007084 Chorismate mutase type II; Region: CM_2; cl00693 290398007085 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 290398007086 Prephenate dehydratase; Region: PDT; pfam00800 290398007087 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 290398007088 putative L-Phe binding site [chemical binding]; other site 290398007089 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 290398007090 homodimer interface [polypeptide binding]; other site 290398007091 substrate-cofactor binding pocket; other site 290398007092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398007093 catalytic residue [active] 290398007094 DNA gyrase subunit A; Validated; Region: PRK05560 290398007095 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 290398007096 CAP-like domain; other site 290398007097 active site 290398007098 primary dimer interface [polypeptide binding]; other site 290398007099 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290398007100 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290398007101 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290398007102 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290398007103 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290398007104 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290398007105 Putative exonuclease, RdgC; Region: RdgC; pfam04381 290398007106 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290398007107 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 290398007108 putative acyl-acceptor binding pocket; other site 290398007109 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 290398007110 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 290398007111 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 290398007112 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 290398007113 Pilin (bacterial filament); Region: Pilin; pfam00114 290398007114 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 290398007115 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 290398007116 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 290398007117 Walker A motif; other site 290398007118 ATP binding site [chemical binding]; other site 290398007119 Walker B motif; other site 290398007120 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 290398007121 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290398007122 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290398007123 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 290398007124 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 290398007125 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 290398007126 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 290398007127 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 290398007128 CoA-binding site [chemical binding]; other site 290398007129 ATP-binding [chemical binding]; other site 290398007130 Domain of unknown function (DUF329); Region: DUF329; cl01144 290398007131 hypothetical protein; Provisional; Region: PRK08999 290398007132 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 290398007133 active site 290398007134 8-oxo-dGMP binding site [chemical binding]; other site 290398007135 nudix motif; other site 290398007136 metal binding site [ion binding]; metal-binding site 290398007137 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 290398007138 thiamine phosphate binding site [chemical binding]; other site 290398007139 active site 290398007140 pyrophosphate binding site [ion binding]; other site 290398007141 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 290398007142 heterotetramer interface [polypeptide binding]; other site 290398007143 active site pocket [active] 290398007144 cleavage site 290398007145 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 290398007146 DEAD/DEAH box helicase; Region: DEAD; pfam00270 290398007147 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 290398007148 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398007149 nucleotide binding region [chemical binding]; other site 290398007150 ATP-binding site [chemical binding]; other site 290398007151 SEC-C motif; Region: SEC-C; pfam02810 290398007152 Protein of unknown function (DUF721); Region: DUF721; pfam05258 290398007153 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 290398007154 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 290398007155 cell division protein FtsZ; Validated; Region: PRK09330 290398007156 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 290398007157 nucleotide binding site [chemical binding]; other site 290398007158 SulA interaction site; other site 290398007159 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 290398007160 cell division protein FtsA; Region: ftsA; TIGR01174 290398007161 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290398007162 nucleotide binding site [chemical binding]; other site 290398007163 Cell division protein FtsA; Region: FtsA; pfam14450 290398007164 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 290398007165 Cell division protein FtsQ; Region: FtsQ; pfam03799 290398007166 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 290398007167 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 290398007168 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290398007169 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 290398007170 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290398007171 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290398007172 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290398007173 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 290398007174 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 290398007175 active site 290398007176 homodimer interface [polypeptide binding]; other site 290398007177 cell division protein FtsW; Region: ftsW; TIGR02614 290398007178 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 290398007179 TrkA-N domain; Region: TrkA_N; pfam02254 290398007180 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290398007181 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290398007182 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 290398007183 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 290398007184 Mg++ binding site [ion binding]; other site 290398007185 putative catalytic motif [active] 290398007186 putative substrate binding site [chemical binding]; other site 290398007187 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 290398007188 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290398007189 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290398007190 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290398007191 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 290398007192 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290398007193 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290398007194 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290398007195 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 290398007196 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290398007197 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290398007198 Cell division protein FtsL; Region: FtsL; pfam04999 290398007199 MraW methylase family; Region: Methyltransf_5; cl17771 290398007200 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 290398007201 Predicted methyltransferases [General function prediction only]; Region: COG0313 290398007202 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 290398007203 putative SAM binding site [chemical binding]; other site 290398007204 putative homodimer interface [polypeptide binding]; other site 290398007205 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 290398007206 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 290398007207 putative ligand binding site [chemical binding]; other site 290398007208 hypothetical protein; Reviewed; Region: PRK12497 290398007209 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 290398007210 dimer interface [polypeptide binding]; other site 290398007211 active site 290398007212 outer membrane lipoprotein; Provisional; Region: PRK11023 290398007213 BON domain; Region: BON; pfam04972 290398007214 BON domain; Region: BON; pfam04972 290398007215 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 290398007216 stringent starvation protein A; Provisional; Region: sspA; PRK09481 290398007217 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 290398007218 C-terminal domain interface [polypeptide binding]; other site 290398007219 putative GSH binding site (G-site) [chemical binding]; other site 290398007220 dimer interface [polypeptide binding]; other site 290398007221 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 290398007222 dimer interface [polypeptide binding]; other site 290398007223 N-terminal domain interface [polypeptide binding]; other site 290398007224 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 290398007225 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 290398007226 23S rRNA interface [nucleotide binding]; other site 290398007227 L3 interface [polypeptide binding]; other site 290398007228 Predicted ATPase [General function prediction only]; Region: COG1485 290398007229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 290398007230 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 290398007231 Uncharacterized conserved protein [Function unknown]; Region: COG0327 290398007232 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 290398007233 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290398007234 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 290398007235 protein binding site [polypeptide binding]; other site 290398007236 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 290398007237 histidinol dehydrogenase; Region: hisD; TIGR00069 290398007238 NAD binding site [chemical binding]; other site 290398007239 dimerization interface [polypeptide binding]; other site 290398007240 product binding site; other site 290398007241 substrate binding site [chemical binding]; other site 290398007242 zinc binding site [ion binding]; other site 290398007243 catalytic residues [active] 290398007244 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 290398007245 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 290398007246 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 290398007247 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 290398007248 hinge; other site 290398007249 active site 290398007250 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 290398007251 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 290398007252 anti sigma factor interaction site; other site 290398007253 regulatory phosphorylation site [posttranslational modification]; other site 290398007254 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 290398007255 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 290398007256 mce related protein; Region: MCE; pfam02470 290398007257 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 290398007258 Permease; Region: Permease; cl00510 290398007259 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 290398007260 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 290398007261 Walker A/P-loop; other site 290398007262 ATP binding site [chemical binding]; other site 290398007263 Q-loop/lid; other site 290398007264 ABC transporter signature motif; other site 290398007265 Walker B; other site 290398007266 D-loop; other site 290398007267 H-loop/switch region; other site 290398007268 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 290398007269 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 290398007270 putative active site [active] 290398007271 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 290398007272 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 290398007273 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398007274 active site 290398007275 motif I; other site 290398007276 motif II; other site 290398007277 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 290398007278 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 290398007279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 290398007280 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 290398007281 OstA-like protein; Region: OstA; pfam03968 290398007282 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 290398007283 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 290398007284 Walker A/P-loop; other site 290398007285 ATP binding site [chemical binding]; other site 290398007286 Q-loop/lid; other site 290398007287 ABC transporter signature motif; other site 290398007288 Walker B; other site 290398007289 D-loop; other site 290398007290 H-loop/switch region; other site 290398007291 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 290398007292 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 290398007293 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 290398007294 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 290398007295 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 290398007296 30S subunit binding site; other site 290398007297 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 290398007298 active site 290398007299 phosphorylation site [posttranslational modification] 290398007300 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 290398007301 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 290398007302 regulatory protein interface [polypeptide binding]; other site 290398007303 active site 290398007304 regulatory phosphorylation site [posttranslational modification]; other site 290398007305 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 290398007306 MgtE intracellular N domain; Region: MgtE_N; smart00924 290398007307 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 290398007308 Divalent cation transporter; Region: MgtE; cl00786 290398007309 peptidase PmbA; Provisional; Region: PRK11040 290398007310 Protein of unknown function (DUF615); Region: DUF615; pfam04751 290398007311 protease TldD; Provisional; Region: tldD; PRK10735 290398007312 TIGR02099 family protein; Region: TIGR02099 290398007313 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 290398007314 ribonuclease G; Provisional; Region: PRK11712 290398007315 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 290398007316 homodimer interface [polypeptide binding]; other site 290398007317 oligonucleotide binding site [chemical binding]; other site 290398007318 Maf-like protein; Provisional; Region: PRK14361 290398007319 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 290398007320 active site 290398007321 dimer interface [polypeptide binding]; other site 290398007322 rod shape-determining protein MreD; Region: MreD; cl01087 290398007323 rod shape-determining protein MreC; Provisional; Region: PRK13922 290398007324 rod shape-determining protein MreC; Region: MreC; pfam04085 290398007325 rod shape-determining protein MreB; Provisional; Region: PRK13927 290398007326 MreB and similar proteins; Region: MreB_like; cd10225 290398007327 nucleotide binding site [chemical binding]; other site 290398007328 Mg binding site [ion binding]; other site 290398007329 putative protofilament interaction site [polypeptide binding]; other site 290398007330 RodZ interaction site [polypeptide binding]; other site 290398007331 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 290398007332 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 290398007333 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 290398007334 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 290398007335 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 290398007336 GatB domain; Region: GatB_Yqey; smart00845 290398007337 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 290398007338 Sel1-like repeats; Region: SEL1; smart00671 290398007339 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 290398007340 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 290398007341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 290398007342 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 290398007343 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 290398007344 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290398007345 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 290398007346 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 290398007347 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 290398007348 PAAR motif; Region: PAAR_motif; pfam05488 290398007349 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 290398007350 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 290398007351 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 290398007352 Protein of unknown function (DUF796); Region: DUF796; pfam05638 290398007353 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 290398007354 G1 box; other site 290398007355 GTP/Mg2+ binding site [chemical binding]; other site 290398007356 G2 box; other site 290398007357 G3 box; other site 290398007358 Switch II region; other site 290398007359 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 290398007360 G4 box; other site 290398007361 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 290398007362 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290398007363 ligand binding site [chemical binding]; other site 290398007364 type VI secretion-associated protein, BMA_A0400 family; Region: VI_minor_4; TIGR03373 290398007365 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 290398007366 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 290398007367 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 290398007368 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 290398007369 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 290398007370 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 290398007371 NlpE N-terminal domain; Region: NlpE; pfam04170 290398007372 Protein of unknown function (DUF770); Region: DUF770; pfam05591 290398007373 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 290398007374 Protein of unknown function (DUF877); Region: DUF877; pfam05943 290398007375 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 290398007376 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 290398007377 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 290398007378 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 290398007379 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 290398007380 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398007381 Walker A motif; other site 290398007382 ATP binding site [chemical binding]; other site 290398007383 Walker B motif; other site 290398007384 arginine finger; other site 290398007385 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398007386 Walker A motif; other site 290398007387 ATP binding site [chemical binding]; other site 290398007388 Walker B motif; other site 290398007389 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290398007390 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 290398007391 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290398007392 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 290398007393 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 290398007394 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 290398007395 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 290398007396 Protein kinase domain; Region: Pkinase; pfam00069 290398007397 Catalytic domain of Protein Kinases; Region: PKc; cd00180 290398007398 active site 290398007399 ATP binding site [chemical binding]; other site 290398007400 substrate binding site [chemical binding]; other site 290398007401 activation loop (A-loop); other site 290398007402 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 290398007403 dimer interface [polypeptide binding]; other site 290398007404 substrate binding site [chemical binding]; other site 290398007405 metal binding sites [ion binding]; metal-binding site 290398007406 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; cl11978 290398007407 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 290398007408 Dehydroquinase class II; Region: DHquinase_II; pfam01220 290398007409 active site 290398007410 trimer interface [polypeptide binding]; other site 290398007411 dimer interface [polypeptide binding]; other site 290398007412 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 290398007413 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 290398007414 carboxyltransferase (CT) interaction site; other site 290398007415 biotinylation site [posttranslational modification]; other site 290398007416 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 290398007417 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290398007418 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290398007419 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290398007420 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 290398007421 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398007422 S-adenosylmethionine binding site [chemical binding]; other site 290398007423 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 290398007424 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 290398007425 FMN binding site [chemical binding]; other site 290398007426 active site 290398007427 catalytic residues [active] 290398007428 substrate binding site [chemical binding]; other site 290398007429 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 290398007430 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 290398007431 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 290398007432 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 290398007433 purine monophosphate binding site [chemical binding]; other site 290398007434 dimer interface [polypeptide binding]; other site 290398007435 putative catalytic residues [active] 290398007436 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 290398007437 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 290398007438 succinic semialdehyde dehydrogenase; Region: PLN02278 290398007439 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 290398007440 tetramerization interface [polypeptide binding]; other site 290398007441 NAD(P) binding site [chemical binding]; other site 290398007442 catalytic residues [active] 290398007443 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 290398007444 active site 290398007445 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 290398007446 homodecamer interface [polypeptide binding]; other site 290398007447 GTP cyclohydrolase I; Provisional; Region: PLN03044 290398007448 active site 290398007449 putative catalytic site residues [active] 290398007450 zinc binding site [ion binding]; other site 290398007451 GTP-CH-I/GFRP interaction surface; other site 290398007452 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 290398007453 serine/threonine protein kinase; Provisional; Region: PRK11768 290398007454 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 290398007455 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398007456 active site 290398007457 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 290398007458 Na binding site [ion binding]; other site 290398007459 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 290398007460 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 290398007461 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 290398007462 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290398007463 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290398007464 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 290398007465 UreF; Region: UreF; pfam01730 290398007466 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 290398007467 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 290398007468 dimer interface [polypeptide binding]; other site 290398007469 catalytic residues [active] 290398007470 urease subunit alpha; Reviewed; Region: ureC; PRK13207 290398007471 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 290398007472 subunit interactions [polypeptide binding]; other site 290398007473 active site 290398007474 flap region; other site 290398007475 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 290398007476 gamma-beta subunit interface [polypeptide binding]; other site 290398007477 alpha-beta subunit interface [polypeptide binding]; other site 290398007478 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 290398007479 alpha-gamma subunit interface [polypeptide binding]; other site 290398007480 beta-gamma subunit interface [polypeptide binding]; other site 290398007481 UreD urease accessory protein; Region: UreD; pfam01774 290398007482 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 290398007483 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290398007484 Walker A/P-loop; other site 290398007485 ATP binding site [chemical binding]; other site 290398007486 Q-loop/lid; other site 290398007487 ABC transporter signature motif; other site 290398007488 Walker B; other site 290398007489 D-loop; other site 290398007490 H-loop/switch region; other site 290398007491 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 290398007492 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290398007493 Walker A/P-loop; other site 290398007494 ATP binding site [chemical binding]; other site 290398007495 Q-loop/lid; other site 290398007496 ABC transporter signature motif; other site 290398007497 Walker B; other site 290398007498 D-loop; other site 290398007499 H-loop/switch region; other site 290398007500 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 290398007501 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 290398007502 TM-ABC transporter signature motif; other site 290398007503 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290398007504 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 290398007505 TM-ABC transporter signature motif; other site 290398007506 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 290398007507 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 290398007508 putative ligand binding site [chemical binding]; other site 290398007509 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 290398007510 active site 290398007511 SAM binding site [chemical binding]; other site 290398007512 homodimer interface [polypeptide binding]; other site 290398007513 seryl-tRNA synthetase; Provisional; Region: PRK05431 290398007514 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 290398007515 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 290398007516 dimer interface [polypeptide binding]; other site 290398007517 active site 290398007518 motif 1; other site 290398007519 motif 2; other site 290398007520 motif 3; other site 290398007521 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290398007522 FAD binding domain; Region: FAD_binding_4; pfam01565 290398007523 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 290398007524 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 290398007525 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 290398007526 TrkA-N domain; Region: TrkA_N; pfam02254 290398007527 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 290398007528 active site 290398007529 ribulose/triose binding site [chemical binding]; other site 290398007530 phosphate binding site [ion binding]; other site 290398007531 substrate (anthranilate) binding pocket [chemical binding]; other site 290398007532 product (indole) binding pocket [chemical binding]; other site 290398007533 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 290398007534 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 290398007535 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 290398007536 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 290398007537 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 290398007538 glutamine binding [chemical binding]; other site 290398007539 catalytic triad [active] 290398007540 anthranilate synthase component I; Provisional; Region: PRK13565 290398007541 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 290398007542 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 290398007543 phosphoglycolate phosphatase; Provisional; Region: PRK13222 290398007544 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290398007545 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398007546 motif II; other site 290398007547 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 290398007548 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398007549 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 290398007550 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 290398007551 DAK2 domain; Region: Dak2; pfam02734 290398007552 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 290398007553 GIY-YIG motif/motif A; other site 290398007554 putative active site [active] 290398007555 putative metal binding site [ion binding]; other site 290398007556 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 290398007557 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 290398007558 substrate binding site [chemical binding]; other site 290398007559 hexamer interface [polypeptide binding]; other site 290398007560 metal binding site [ion binding]; metal-binding site 290398007561 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 290398007562 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 290398007563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398007564 putative substrate translocation pore; other site 290398007565 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 290398007566 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 290398007567 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 290398007568 Bacterial SH3 domain; Region: SH3_3; pfam08239 290398007569 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 290398007570 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290398007571 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398007572 FeS/SAM binding site; other site 290398007573 TRAM domain; Region: TRAM; pfam01938 290398007574 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 290398007575 PhoH-like protein; Region: PhoH; pfam02562 290398007576 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 290398007577 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 290398007578 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 290398007579 Transporter associated domain; Region: CorC_HlyC; smart01091 290398007580 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 290398007581 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 290398007582 putative active site [active] 290398007583 catalytic triad [active] 290398007584 putative dimer interface [polypeptide binding]; other site 290398007585 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 290398007586 Proline racemase; Region: Pro_racemase; pfam05544 290398007587 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 290398007588 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 290398007589 NAD(P) binding site [chemical binding]; other site 290398007590 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 290398007591 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398007592 salt bridge; other site 290398007593 non-specific DNA binding site [nucleotide binding]; other site 290398007594 sequence-specific DNA binding site [nucleotide binding]; other site 290398007595 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 290398007596 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 290398007597 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 290398007598 HIGH motif; other site 290398007599 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 290398007600 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290398007601 active site 290398007602 KMSKS motif; other site 290398007603 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 290398007604 tRNA binding surface [nucleotide binding]; other site 290398007605 Lipopolysaccharide-assembly; Region: LptE; pfam04390 290398007606 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 290398007607 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 290398007608 Protein of unknown function, DUF488; Region: DUF488; cl01246 290398007609 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 290398007610 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 290398007611 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 290398007612 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290398007613 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 290398007614 cytosine permease; Provisional; Region: codB; PRK11017 290398007615 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 290398007616 Na binding site [ion binding]; other site 290398007617 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290398007618 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 290398007619 putative active site [active] 290398007620 catalytic triad [active] 290398007621 putative dimer interface [polypeptide binding]; other site 290398007622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398007623 dimer interface [polypeptide binding]; other site 290398007624 conserved gate region; other site 290398007625 ABC-ATPase subunit interface; other site 290398007626 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 290398007627 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 290398007628 Walker A/P-loop; other site 290398007629 ATP binding site [chemical binding]; other site 290398007630 Q-loop/lid; other site 290398007631 ABC transporter signature motif; other site 290398007632 Walker B; other site 290398007633 D-loop; other site 290398007634 H-loop/switch region; other site 290398007635 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 290398007636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398007637 dimer interface [polypeptide binding]; other site 290398007638 conserved gate region; other site 290398007639 putative PBP binding loops; other site 290398007640 ABC-ATPase subunit interface; other site 290398007641 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 290398007642 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 290398007643 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 290398007644 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 290398007645 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290398007646 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 290398007647 putative active site [active] 290398007648 catalytic triad [active] 290398007649 putative dimer interface [polypeptide binding]; other site 290398007650 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 290398007651 substrate binding site [chemical binding]; other site 290398007652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398007653 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 290398007654 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398007655 dimerization interface [polypeptide binding]; other site 290398007656 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 290398007657 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398007658 EamA-like transporter family; Region: EamA; pfam00892 290398007659 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 290398007660 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 290398007661 PLD-like domain; Region: PLDc_2; pfam13091 290398007662 homodimer interface [polypeptide binding]; other site 290398007663 putative active site [active] 290398007664 catalytic site [active] 290398007665 AAA domain; Region: AAA_31; pfam13614 290398007666 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290398007667 P-loop; other site 290398007668 Magnesium ion binding site [ion binding]; other site 290398007669 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290398007670 Magnesium ion binding site [ion binding]; other site 290398007671 Predicted transcriptional regulators [Transcription]; Region: COG1733 290398007672 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290398007673 short chain dehydrogenase; Provisional; Region: PRK06500 290398007674 classical (c) SDRs; Region: SDR_c; cd05233 290398007675 NAD(P) binding site [chemical binding]; other site 290398007676 active site 290398007677 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 290398007678 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 290398007679 NAD(P) binding site [chemical binding]; other site 290398007680 CAAX protease self-immunity; Region: Abi; pfam02517 290398007681 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_22; cd08359 290398007682 putative dimer interface [polypeptide binding]; other site 290398007683 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290398007684 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 290398007685 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 290398007686 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 290398007687 tetrameric interface [polypeptide binding]; other site 290398007688 NAD binding site [chemical binding]; other site 290398007689 catalytic residues [active] 290398007690 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290398007691 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290398007692 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290398007693 active site 290398007694 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 290398007695 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398007696 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398007697 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398007698 dimerization interface [polypeptide binding]; other site 290398007699 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 290398007700 Na binding site [ion binding]; other site 290398007701 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398007702 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398007703 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 290398007704 putative substrate binding pocket [chemical binding]; other site 290398007705 dimerization interface [polypeptide binding]; other site 290398007706 acetylornithine deacetylase; Provisional; Region: PRK07522 290398007707 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 290398007708 metal binding site [ion binding]; metal-binding site 290398007709 putative dimer interface [polypeptide binding]; other site 290398007710 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 290398007711 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 290398007712 homotrimer interaction site [polypeptide binding]; other site 290398007713 putative active site [active] 290398007714 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 290398007715 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 290398007716 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 290398007717 dimer interface [polypeptide binding]; other site 290398007718 substrate binding site [chemical binding]; other site 290398007719 metal binding sites [ion binding]; metal-binding site 290398007720 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 290398007721 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 290398007722 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 290398007723 dimer interface [polypeptide binding]; other site 290398007724 active site 290398007725 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 290398007726 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 290398007727 substrate binding site [chemical binding]; other site 290398007728 oxyanion hole (OAH) forming residues; other site 290398007729 trimer interface [polypeptide binding]; other site 290398007730 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 290398007731 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290398007732 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290398007733 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 290398007734 transcriptional regulator SlyA; Provisional; Region: PRK03573 290398007735 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 290398007736 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 290398007737 Ligand Binding Site [chemical binding]; other site 290398007738 ABC transporter ATPase component; Reviewed; Region: PRK11147 290398007739 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398007740 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398007741 ABC transporter; Region: ABC_tran_2; pfam12848 290398007742 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398007743 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 290398007744 active site 290398007745 HPP family; Region: HPP; pfam04982 290398007746 Protein of unknown function, DUF462; Region: DUF462; pfam04315 290398007747 multidrug efflux protein; Reviewed; Region: PRK01766 290398007748 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 290398007749 cation binding site [ion binding]; other site 290398007750 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290398007751 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398007752 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290398007753 Protein export membrane protein; Region: SecD_SecF; cl14618 290398007754 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 290398007755 Protein export membrane protein; Region: SecD_SecF; cl14618 290398007756 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 290398007757 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398007758 dimer interface [polypeptide binding]; other site 290398007759 phosphorylation site [posttranslational modification] 290398007760 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398007761 ATP binding site [chemical binding]; other site 290398007762 Mg2+ binding site [ion binding]; other site 290398007763 G-X-G motif; other site 290398007764 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290398007765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398007766 active site 290398007767 phosphorylation site [posttranslational modification] 290398007768 intermolecular recognition site; other site 290398007769 dimerization interface [polypeptide binding]; other site 290398007770 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398007771 Walker A motif; other site 290398007772 ATP binding site [chemical binding]; other site 290398007773 Walker B motif; other site 290398007774 arginine finger; other site 290398007775 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290398007776 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290398007777 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 290398007778 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 290398007779 DctM-like transporters; Region: DctM; pfam06808 290398007780 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 290398007781 CPxP motif; other site 290398007782 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 290398007783 FtsJ-like methyltransferase; Region: FtsJ; cl17430 290398007784 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290398007785 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290398007786 Walker A/P-loop; other site 290398007787 ATP binding site [chemical binding]; other site 290398007788 Q-loop/lid; other site 290398007789 ABC transporter signature motif; other site 290398007790 Walker B; other site 290398007791 D-loop; other site 290398007792 H-loop/switch region; other site 290398007793 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290398007794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398007795 dimer interface [polypeptide binding]; other site 290398007796 conserved gate region; other site 290398007797 putative PBP binding loops; other site 290398007798 ABC-ATPase subunit interface; other site 290398007799 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290398007800 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398007801 dimer interface [polypeptide binding]; other site 290398007802 conserved gate region; other site 290398007803 putative PBP binding loops; other site 290398007804 ABC-ATPase subunit interface; other site 290398007805 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290398007806 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290398007807 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 290398007808 dimerization interface [polypeptide binding]; other site 290398007809 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398007810 dimer interface [polypeptide binding]; other site 290398007811 phosphorylation site [posttranslational modification] 290398007812 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398007813 ATP binding site [chemical binding]; other site 290398007814 Mg2+ binding site [ion binding]; other site 290398007815 G-X-G motif; other site 290398007816 osmolarity response regulator; Provisional; Region: ompR; PRK09468 290398007817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398007818 active site 290398007819 phosphorylation site [posttranslational modification] 290398007820 intermolecular recognition site; other site 290398007821 dimerization interface [polypeptide binding]; other site 290398007822 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398007823 DNA binding site [nucleotide binding] 290398007824 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 290398007825 2-methylcitrate dehydratase; Region: prpD; TIGR02330 290398007826 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 290398007827 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 290398007828 dimer interface [polypeptide binding]; other site 290398007829 active site 290398007830 citrylCoA binding site [chemical binding]; other site 290398007831 oxalacetate/citrate binding site [chemical binding]; other site 290398007832 coenzyme A binding site [chemical binding]; other site 290398007833 catalytic triad [active] 290398007834 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 290398007835 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 290398007836 tetramer interface [polypeptide binding]; other site 290398007837 active site 290398007838 Mg2+/Mn2+ binding site [ion binding]; other site 290398007839 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398007840 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398007841 DNA-binding site [nucleotide binding]; DNA binding site 290398007842 FCD domain; Region: FCD; pfam07729 290398007843 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398007844 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 290398007845 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 290398007846 chorismate binding enzyme; Region: Chorismate_bind; cl10555 290398007847 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 290398007848 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 290398007849 ABC-ATPase subunit interface; other site 290398007850 dimer interface [polypeptide binding]; other site 290398007851 putative PBP binding regions; other site 290398007852 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290398007853 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290398007854 Walker A/P-loop; other site 290398007855 ATP binding site [chemical binding]; other site 290398007856 Q-loop/lid; other site 290398007857 ABC transporter signature motif; other site 290398007858 Walker B; other site 290398007859 D-loop; other site 290398007860 H-loop/switch region; other site 290398007861 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 290398007862 Active Sites [active] 290398007863 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 290398007864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398007865 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 290398007866 substrate binding site [chemical binding]; other site 290398007867 dimerization interface [polypeptide binding]; other site 290398007868 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 290398007869 catalytic residues [active] 290398007870 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 290398007871 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290398007872 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 290398007873 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 290398007874 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290398007875 active site 290398007876 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 290398007877 Lysine efflux permease [General function prediction only]; Region: COG1279 290398007878 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 290398007879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398007880 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398007881 dimerization interface [polypeptide binding]; other site 290398007882 Domain of unknown function DUF77; Region: DUF77; pfam01910 290398007883 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 290398007884 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 290398007885 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 290398007886 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 290398007887 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 290398007888 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 290398007889 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 290398007890 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 290398007891 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 290398007892 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 290398007893 rRNA binding site [nucleotide binding]; other site 290398007894 predicted 30S ribosome binding site; other site 290398007895 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 290398007896 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398007897 Walker A motif; other site 290398007898 ATP binding site [chemical binding]; other site 290398007899 Walker B motif; other site 290398007900 arginine finger; other site 290398007901 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398007902 Walker A motif; other site 290398007903 ATP binding site [chemical binding]; other site 290398007904 Walker B motif; other site 290398007905 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 290398007906 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 290398007907 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 290398007908 pseudouridine synthase; Region: TIGR00093 290398007909 active site 290398007910 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 290398007911 nudix motif; other site 290398007912 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 290398007913 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 290398007914 Ligand Binding Site [chemical binding]; other site 290398007915 Protein of unknown function (DUF489); Region: DUF489; pfam04356 290398007916 adenylosuccinate lyase; Provisional; Region: PRK09285 290398007917 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 290398007918 tetramer interface [polypeptide binding]; other site 290398007919 active site 290398007920 Uncharacterized conserved protein [Function unknown]; Region: COG2850 290398007921 Cupin-like domain; Region: Cupin_8; pfam13621 290398007922 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290398007923 Coenzyme A binding pocket [chemical binding]; other site 290398007924 isocitrate lyase; Provisional; Region: PRK15063 290398007925 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 290398007926 tetramer interface [polypeptide binding]; other site 290398007927 active site 290398007928 Mg2+/Mn2+ binding site [ion binding]; other site 290398007929 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 290398007930 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290398007931 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 290398007932 tartrate dehydrogenase; Region: TTC; TIGR02089 290398007933 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 290398007934 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 290398007935 substrate binding site [chemical binding]; other site 290398007936 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 290398007937 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 290398007938 substrate binding site [chemical binding]; other site 290398007939 ligand binding site [chemical binding]; other site 290398007940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398007941 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398007942 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398007943 dimerization interface [polypeptide binding]; other site 290398007944 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290398007945 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 290398007946 [2Fe-2S] cluster binding site [ion binding]; other site 290398007947 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 290398007948 hydrophobic ligand binding site; other site 290398007949 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290398007950 classical (c) SDRs; Region: SDR_c; cd05233 290398007951 NAD(P) binding site [chemical binding]; other site 290398007952 active site 290398007953 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 290398007954 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290398007955 choline dehydrogenase; Validated; Region: PRK02106 290398007956 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 290398007957 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 290398007958 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 290398007959 FMN-binding pocket [chemical binding]; other site 290398007960 flavin binding motif; other site 290398007961 phosphate binding motif [ion binding]; other site 290398007962 beta-alpha-beta structure motif; other site 290398007963 NAD binding pocket [chemical binding]; other site 290398007964 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398007965 catalytic loop [active] 290398007966 iron binding site [ion binding]; other site 290398007967 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290398007968 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 290398007969 NAD(P) binding site [chemical binding]; other site 290398007970 catalytic residues [active] 290398007971 hypothetical protein; Provisional; Region: PRK07490 290398007972 intersubunit interface [polypeptide binding]; other site 290398007973 active site 290398007974 Zn2+ binding site [ion binding]; other site 290398007975 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 290398007976 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 290398007977 conserved cys residue [active] 290398007978 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398007979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398007980 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 290398007981 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 290398007982 Phasin protein; Region: Phasin_2; cl11491 290398007983 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 290398007984 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 290398007985 Tetramer interface [polypeptide binding]; other site 290398007986 active site 290398007987 FMN-binding site [chemical binding]; other site 290398007988 HemK family putative methylases; Region: hemK_fam; TIGR00536 290398007989 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398007990 S-adenosylmethionine binding site [chemical binding]; other site 290398007991 Smr domain; Region: Smr; pfam01713 290398007992 hypothetical protein; Provisional; Region: PRK10279 290398007993 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 290398007994 active site 290398007995 nucleophile elbow; other site 290398007996 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398007997 Predicted permeases [General function prediction only]; Region: COG0679 290398007998 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 290398007999 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398008000 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398008001 DNA-binding site [nucleotide binding]; DNA binding site 290398008002 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290398008003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398008004 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 290398008005 NAD(P) binding site [chemical binding]; other site 290398008006 active site 290398008007 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 290398008008 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 290398008009 active site 290398008010 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 290398008011 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 290398008012 active site pocket [active] 290398008013 DctM-like transporters; Region: DctM; pfam06808 290398008014 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398008015 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398008016 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398008017 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 290398008018 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 290398008019 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398008020 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398008021 ABC transporter; Region: ABC_tran_2; pfam12848 290398008022 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398008023 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 290398008024 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 290398008025 active site 290398008026 tetramer interface [polypeptide binding]; other site 290398008027 DctM-like transporters; Region: DctM; pfam06808 290398008028 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 290398008029 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290398008030 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398008031 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398008032 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 290398008033 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 290398008034 active site 290398008035 tetramer interface [polypeptide binding]; other site 290398008036 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290398008037 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 290398008038 putative active site [active] 290398008039 catalytic residue [active] 290398008040 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 290398008041 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 290398008042 catalytic core [active] 290398008043 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 290398008044 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290398008045 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 290398008046 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 290398008047 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 290398008048 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 290398008049 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 290398008050 ligand binding site [chemical binding]; other site 290398008051 homodimer interface [polypeptide binding]; other site 290398008052 NAD(P) binding site [chemical binding]; other site 290398008053 trimer interface B [polypeptide binding]; other site 290398008054 trimer interface A [polypeptide binding]; other site 290398008055 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 290398008056 Isochorismatase family; Region: Isochorismatase; pfam00857 290398008057 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 290398008058 catalytic triad [active] 290398008059 conserved cis-peptide bond; other site 290398008060 Uncharacterized conserved protein [Function unknown]; Region: COG0397 290398008061 hypothetical protein; Validated; Region: PRK00029 290398008062 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 290398008063 heat shock protein 90; Provisional; Region: PRK05218 290398008064 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398008065 ATP binding site [chemical binding]; other site 290398008066 Mg2+ binding site [ion binding]; other site 290398008067 G-X-G motif; other site 290398008068 Uncharacterized conserved protein [Function unknown]; Region: COG3339 290398008069 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 290398008070 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290398008071 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290398008072 catalytic residue [active] 290398008073 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398008074 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 290398008075 TM2 domain; Region: TM2; cl00984 290398008076 TM2 domain; Region: TM2; cl00984 290398008077 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290398008078 DNA-binding site [nucleotide binding]; DNA binding site 290398008079 RNA-binding motif; other site 290398008080 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 290398008081 nucleoside/Zn binding site; other site 290398008082 dimer interface [polypeptide binding]; other site 290398008083 catalytic motif [active] 290398008084 lipid kinase; Reviewed; Region: PRK13054 290398008085 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 290398008086 YCII-related domain; Region: YCII; cl00999 290398008087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398008088 putative substrate translocation pore; other site 290398008089 Predicted integral membrane protein [Function unknown]; Region: COG5616 290398008090 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 290398008091 MgtC family; Region: MgtC; pfam02308 290398008092 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 290398008093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398008094 2-isopropylmalate synthase; Validated; Region: PRK03739 290398008095 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 290398008096 active site 290398008097 catalytic residues [active] 290398008098 metal binding site [ion binding]; metal-binding site 290398008099 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290398008100 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290398008101 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 290398008102 dimerization interface [polypeptide binding]; other site 290398008103 putative DNA binding site [nucleotide binding]; other site 290398008104 putative Zn2+ binding site [ion binding]; other site 290398008105 AsnC family; Region: AsnC_trans_reg; pfam01037 290398008106 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 290398008107 aminopeptidase N; Provisional; Region: pepN; PRK14015 290398008108 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 290398008109 active site 290398008110 Zn binding site [ion binding]; other site 290398008111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 290398008112 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290398008113 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290398008114 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 290398008115 acyl-activating enzyme (AAE) consensus motif; other site 290398008116 acyl-activating enzyme (AAE) consensus motif; other site 290398008117 putative AMP binding site [chemical binding]; other site 290398008118 putative active site [active] 290398008119 putative CoA binding site [chemical binding]; other site 290398008120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 290398008121 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 290398008122 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 290398008123 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398008124 Coenzyme A binding pocket [chemical binding]; other site 290398008125 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 290398008126 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 290398008127 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290398008128 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 290398008129 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 290398008130 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 290398008131 active site residue [active] 290398008132 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 290398008133 active site residue [active] 290398008134 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 290398008135 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 290398008136 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290398008137 dimer interface [polypeptide binding]; other site 290398008138 motif 1; other site 290398008139 active site 290398008140 motif 2; other site 290398008141 motif 3; other site 290398008142 elongation factor P; Validated; Region: PRK00529 290398008143 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 290398008144 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 290398008145 RNA binding site [nucleotide binding]; other site 290398008146 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 290398008147 RNA binding site [nucleotide binding]; other site 290398008148 Radical SAM superfamily; Region: Radical_SAM; pfam04055 290398008149 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398008150 FeS/SAM binding site; other site 290398008151 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 290398008152 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 290398008153 2-isopropylmalate synthase; Validated; Region: PRK03739 290398008154 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 290398008155 active site 290398008156 catalytic residues [active] 290398008157 metal binding site [ion binding]; metal-binding site 290398008158 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290398008159 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 290398008160 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 290398008161 active site 290398008162 Zn binding site [ion binding]; other site 290398008163 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 290398008164 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290398008165 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 290398008166 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398008167 N-terminal plug; other site 290398008168 ligand-binding site [chemical binding]; other site 290398008169 Helix-turn-helix domain; Region: HTH_18; pfam12833 290398008170 PilZ domain; Region: PilZ; pfam07238 290398008171 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290398008172 Zn2+ binding site [ion binding]; other site 290398008173 Mg2+ binding site [ion binding]; other site 290398008174 ACT domain; Region: ACT_6; pfam13740 290398008175 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 290398008176 phosphoserine phosphatase SerB; Region: serB; TIGR00338 290398008177 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398008178 motif II; other site 290398008179 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 290398008180 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 290398008181 CAP-like domain; other site 290398008182 active site 290398008183 primary dimer interface [polypeptide binding]; other site 290398008184 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 290398008185 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398008186 Mg2+ binding site [ion binding]; other site 290398008187 G-X-G motif; other site 290398008188 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 290398008189 anchoring element; other site 290398008190 dimer interface [polypeptide binding]; other site 290398008191 ATP binding site [chemical binding]; other site 290398008192 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 290398008193 active site 290398008194 metal binding site [ion binding]; metal-binding site 290398008195 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 290398008196 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 290398008197 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398008198 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 290398008199 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 290398008200 active site 290398008201 dimer interface [polypeptide binding]; other site 290398008202 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 290398008203 dimer interface [polypeptide binding]; other site 290398008204 active site 290398008205 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398008206 S-adenosylmethionine binding site [chemical binding]; other site 290398008207 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290398008208 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398008209 S-adenosylmethionine binding site [chemical binding]; other site 290398008210 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 290398008211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398008212 Walker A/P-loop; other site 290398008213 ATP binding site [chemical binding]; other site 290398008214 Q-loop/lid; other site 290398008215 ABC transporter signature motif; other site 290398008216 Walker B; other site 290398008217 D-loop; other site 290398008218 H-loop/switch region; other site 290398008219 Sulfatase; Region: Sulfatase; cl17466 290398008220 serine O-acetyltransferase; Region: cysE; TIGR01172 290398008221 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 290398008222 trimer interface [polypeptide binding]; other site 290398008223 active site 290398008224 substrate binding site [chemical binding]; other site 290398008225 CoA binding site [chemical binding]; other site 290398008226 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 290398008227 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 290398008228 CysD dimerization site [polypeptide binding]; other site 290398008229 G1 box; other site 290398008230 putative GEF interaction site [polypeptide binding]; other site 290398008231 GTP/Mg2+ binding site [chemical binding]; other site 290398008232 Switch I region; other site 290398008233 G2 box; other site 290398008234 G3 box; other site 290398008235 Switch II region; other site 290398008236 G4 box; other site 290398008237 G5 box; other site 290398008238 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 290398008239 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 290398008240 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 290398008241 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 290398008242 Active Sites [active] 290398008243 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 290398008244 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290398008245 active site 290398008246 metal binding site [ion binding]; metal-binding site 290398008247 hexamer interface [polypeptide binding]; other site 290398008248 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 290398008249 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 290398008250 dimer interface [polypeptide binding]; other site 290398008251 ADP-ribose binding site [chemical binding]; other site 290398008252 active site 290398008253 nudix motif; other site 290398008254 metal binding site [ion binding]; metal-binding site 290398008255 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 290398008256 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 290398008257 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 290398008258 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 290398008259 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 290398008260 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 290398008261 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398008262 S-adenosylmethionine binding site [chemical binding]; other site 290398008263 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290398008264 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398008265 S-adenosylmethionine binding site [chemical binding]; other site 290398008266 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398008267 PAS domain; Region: PAS_9; pfam13426 290398008268 putative active site [active] 290398008269 heme pocket [chemical binding]; other site 290398008270 PAS fold; Region: PAS_3; pfam08447 290398008271 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398008272 PAS domain; Region: PAS_9; pfam13426 290398008273 putative active site [active] 290398008274 heme pocket [chemical binding]; other site 290398008275 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398008276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398008277 metal binding site [ion binding]; metal-binding site 290398008278 active site 290398008279 I-site; other site 290398008280 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398008281 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 290398008282 NmrA-like family; Region: NmrA; pfam05368 290398008283 NAD(P) binding site [chemical binding]; other site 290398008284 active site lysine 290398008285 Predicted transcriptional regulators [Transcription]; Region: COG1733 290398008286 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290398008287 PEGA domain; Region: PEGA; pfam08308 290398008288 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 290398008289 Predicted transcriptional regulator [Transcription]; Region: COG2378 290398008290 WYL domain; Region: WYL; pfam13280 290398008291 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 290398008292 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 290398008293 trimer interface [polypeptide binding]; other site 290398008294 eyelet of channel; other site 290398008295 putative RNA binding sites [nucleotide binding]; other site 290398008296 ProQ/FINO family; Region: ProQ; pfam04352 290398008297 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 290398008298 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 290398008299 folate binding site [chemical binding]; other site 290398008300 NADP+ binding site [chemical binding]; other site 290398008301 thymidylate synthase; Reviewed; Region: thyA; PRK01827 290398008302 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 290398008303 dimerization interface [polypeptide binding]; other site 290398008304 active site 290398008305 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 290398008306 Response regulator receiver domain; Region: Response_reg; pfam00072 290398008307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398008308 active site 290398008309 phosphorylation site [posttranslational modification] 290398008310 intermolecular recognition site; other site 290398008311 dimerization interface [polypeptide binding]; other site 290398008312 NRDE protein; Region: NRDE; cl01315 290398008313 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 290398008314 GAF domain; Region: GAF; pfam01590 290398008315 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 290398008316 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290398008317 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 290398008318 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 290398008319 putative active site [active] 290398008320 Ap4A binding site [chemical binding]; other site 290398008321 nudix motif; other site 290398008322 putative metal binding site [ion binding]; other site 290398008323 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 290398008324 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290398008325 malate:quinone oxidoreductase; Validated; Region: PRK05257 290398008326 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 290398008327 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 290398008328 tetramer interfaces [polypeptide binding]; other site 290398008329 binuclear metal-binding site [ion binding]; other site 290398008330 thiamine monophosphate kinase; Provisional; Region: PRK05731 290398008331 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 290398008332 ATP binding site [chemical binding]; other site 290398008333 dimerization interface [polypeptide binding]; other site 290398008334 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 290398008335 putative RNA binding site [nucleotide binding]; other site 290398008336 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 290398008337 active site 290398008338 homopentamer interface [polypeptide binding]; other site 290398008339 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 290398008340 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 290398008341 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 290398008342 dimerization interface [polypeptide binding]; other site 290398008343 active site 290398008344 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 290398008345 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 290398008346 catalytic motif [active] 290398008347 Zn binding site [ion binding]; other site 290398008348 RibD C-terminal domain; Region: RibD_C; cl17279 290398008349 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 290398008350 ATP cone domain; Region: ATP-cone; pfam03477 290398008351 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 290398008352 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 290398008353 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290398008354 active site 290398008355 homodimer interface [polypeptide binding]; other site 290398008356 catalytic site [active] 290398008357 chromosome condensation membrane protein; Provisional; Region: PRK14196 290398008358 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 290398008359 DsrE/DsrF-like family; Region: DrsE; pfam02635 290398008360 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 290398008361 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 290398008362 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 290398008363 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 290398008364 DsbD alpha interface [polypeptide binding]; other site 290398008365 catalytic residues [active] 290398008366 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 290398008367 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290398008368 catalytic residues [active] 290398008369 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 290398008370 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 290398008371 dimerization domain [polypeptide binding]; other site 290398008372 dimer interface [polypeptide binding]; other site 290398008373 catalytic residues [active] 290398008374 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290398008375 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 290398008376 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398008377 dimer interface [polypeptide binding]; other site 290398008378 phosphorylation site [posttranslational modification] 290398008379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398008380 ATP binding site [chemical binding]; other site 290398008381 Mg2+ binding site [ion binding]; other site 290398008382 G-X-G motif; other site 290398008383 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290398008384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398008385 active site 290398008386 phosphorylation site [posttranslational modification] 290398008387 intermolecular recognition site; other site 290398008388 dimerization interface [polypeptide binding]; other site 290398008389 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398008390 DNA binding site [nucleotide binding] 290398008391 Predicted transporter component [General function prediction only]; Region: COG2391 290398008392 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 290398008393 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290398008394 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398008395 substrate binding pocket [chemical binding]; other site 290398008396 membrane-bound complex binding site; other site 290398008397 hinge residues; other site 290398008398 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398008399 dimer interface [polypeptide binding]; other site 290398008400 conserved gate region; other site 290398008401 putative PBP binding loops; other site 290398008402 ABC-ATPase subunit interface; other site 290398008403 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290398008404 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290398008405 Walker A/P-loop; other site 290398008406 ATP binding site [chemical binding]; other site 290398008407 Q-loop/lid; other site 290398008408 ABC transporter signature motif; other site 290398008409 Walker B; other site 290398008410 D-loop; other site 290398008411 H-loop/switch region; other site 290398008412 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 290398008413 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290398008414 Switch II region; other site 290398008415 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 290398008416 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398008417 active site 290398008418 motif I; other site 290398008419 motif II; other site 290398008420 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 290398008421 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 290398008422 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 290398008423 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 290398008424 active site 290398008425 intersubunit interface [polypeptide binding]; other site 290398008426 catalytic residue [active] 290398008427 Cupin domain; Region: Cupin_2; cl17218 290398008428 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290398008429 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398008430 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290398008431 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 290398008432 inhibitor binding site; inhibition site 290398008433 catalytic Zn binding site [ion binding]; other site 290398008434 structural Zn binding site [ion binding]; other site 290398008435 NADP binding site [chemical binding]; other site 290398008436 tetramer interface [polypeptide binding]; other site 290398008437 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290398008438 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290398008439 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 290398008440 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290398008441 dimer interface [polypeptide binding]; other site 290398008442 conserved gate region; other site 290398008443 ABC-ATPase subunit interface; other site 290398008444 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290398008445 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398008446 dimer interface [polypeptide binding]; other site 290398008447 conserved gate region; other site 290398008448 putative PBP binding loops; other site 290398008449 ABC-ATPase subunit interface; other site 290398008450 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 290398008451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398008452 NAD(P) binding site [chemical binding]; other site 290398008453 active site 290398008454 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290398008455 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290398008456 Walker A/P-loop; other site 290398008457 ATP binding site [chemical binding]; other site 290398008458 Q-loop/lid; other site 290398008459 ABC transporter signature motif; other site 290398008460 Walker B; other site 290398008461 D-loop; other site 290398008462 H-loop/switch region; other site 290398008463 TOBE domain; Region: TOBE_2; pfam08402 290398008464 galactonate dehydratase; Provisional; Region: PRK14017 290398008465 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 290398008466 putative active site pocket [active] 290398008467 putative metal binding site [ion binding]; other site 290398008468 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398008469 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398008470 DNA-binding site [nucleotide binding]; DNA binding site 290398008471 FCD domain; Region: FCD; pfam07729 290398008472 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 290398008473 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 290398008474 dimer interface [polypeptide binding]; other site 290398008475 active site 290398008476 glycine-pyridoxal phosphate binding site [chemical binding]; other site 290398008477 folate binding site [chemical binding]; other site 290398008478 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 290398008479 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 290398008480 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290398008481 Walker A/P-loop; other site 290398008482 ATP binding site [chemical binding]; other site 290398008483 Q-loop/lid; other site 290398008484 ABC transporter signature motif; other site 290398008485 Walker B; other site 290398008486 D-loop; other site 290398008487 H-loop/switch region; other site 290398008488 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 290398008489 active site 290398008490 catalytic triad [active] 290398008491 oxyanion hole [active] 290398008492 switch loop; other site 290398008493 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 290398008494 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 290398008495 Cl binding site [ion binding]; other site 290398008496 oligomer interface [polypeptide binding]; other site 290398008497 Rdx family; Region: Rdx; cl01407 290398008498 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398008499 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290398008500 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398008501 PAS domain; Region: PAS_9; pfam13426 290398008502 putative active site [active] 290398008503 heme pocket [chemical binding]; other site 290398008504 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 290398008505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398008506 Walker A/P-loop; other site 290398008507 ATP binding site [chemical binding]; other site 290398008508 Q-loop/lid; other site 290398008509 ABC transporter signature motif; other site 290398008510 Walker B; other site 290398008511 D-loop; other site 290398008512 H-loop/switch region; other site 290398008513 ABC transporter; Region: ABC_tran_2; pfam12848 290398008514 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398008515 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 290398008516 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 290398008517 putative acyl-acceptor binding pocket; other site 290398008518 alanine racemase; Reviewed; Region: dadX; PRK03646 290398008519 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 290398008520 active site 290398008521 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290398008522 substrate binding site [chemical binding]; other site 290398008523 catalytic residues [active] 290398008524 dimer interface [polypeptide binding]; other site 290398008525 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 290398008526 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 290398008527 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 290398008528 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290398008529 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 290398008530 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 290398008531 DNA binding residues [nucleotide binding] 290398008532 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290398008533 Peptidase family M23; Region: Peptidase_M23; pfam01551 290398008534 Domain of unknown function (DUF368); Region: DUF368; pfam04018 290398008535 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 290398008536 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398008537 S-adenosylmethionine binding site [chemical binding]; other site 290398008538 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 290398008539 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 290398008540 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 290398008541 Permutation of conserved domain; other site 290398008542 active site 290398008543 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 290398008544 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 290398008545 homotrimer interaction site [polypeptide binding]; other site 290398008546 zinc binding site [ion binding]; other site 290398008547 CDP-binding sites; other site 290398008548 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 290398008549 substrate binding site; other site 290398008550 dimer interface; other site 290398008551 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 290398008552 Septum formation initiator; Region: DivIC; cl17659 290398008553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 290398008554 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 290398008555 nudix motif; other site 290398008556 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 290398008557 putative active site [active] 290398008558 putative CoA binding site [chemical binding]; other site 290398008559 nudix motif; other site 290398008560 metal binding site [ion binding]; metal-binding site 290398008561 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 290398008562 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 290398008563 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 290398008564 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 290398008565 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290398008566 active site 290398008567 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 290398008568 choline transport protein BetT; Provisional; Region: PRK09928 290398008569 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 290398008570 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 290398008571 active site 290398008572 P-loop; other site 290398008573 phosphorylation site [posttranslational modification] 290398008574 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 290398008575 active site 290398008576 P-loop; other site 290398008577 phosphorylation site [posttranslational modification] 290398008578 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 290398008579 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 290398008580 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 290398008581 putative substrate binding site [chemical binding]; other site 290398008582 putative ATP binding site [chemical binding]; other site 290398008583 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 290398008584 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 290398008585 active site 290398008586 phosphorylation site [posttranslational modification] 290398008587 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 290398008588 dimerization domain swap beta strand [polypeptide binding]; other site 290398008589 regulatory protein interface [polypeptide binding]; other site 290398008590 active site 290398008591 regulatory phosphorylation site [posttranslational modification]; other site 290398008592 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 290398008593 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 290398008594 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290398008595 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 290398008596 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 290398008597 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290398008598 DNA binding site [nucleotide binding] 290398008599 domain linker motif; other site 290398008600 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 290398008601 dimerization interface [polypeptide binding]; other site 290398008602 ligand binding site [chemical binding]; other site 290398008603 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398008604 active site 290398008605 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 290398008606 metal binding site [ion binding]; metal-binding site 290398008607 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 290398008608 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 290398008609 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 290398008610 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 290398008611 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 290398008612 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 290398008613 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 290398008614 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 290398008615 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 290398008616 RNA binding site [nucleotide binding]; other site 290398008617 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 290398008618 SelR domain; Region: SelR; pfam01641 290398008619 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 290398008620 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 290398008621 active site 290398008622 substrate-binding site [chemical binding]; other site 290398008623 metal-binding site [ion binding] 290398008624 ATP binding site [chemical binding]; other site 290398008625 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 290398008626 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 290398008627 dimerization interface [polypeptide binding]; other site 290398008628 domain crossover interface; other site 290398008629 redox-dependent activation switch; other site 290398008630 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 290398008631 RNA binding surface [nucleotide binding]; other site 290398008632 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 290398008633 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398008634 motif II; other site 290398008635 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 290398008636 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 290398008637 dimer interface [polypeptide binding]; other site 290398008638 ADP-ribose binding site [chemical binding]; other site 290398008639 active site 290398008640 nudix motif; other site 290398008641 metal binding site [ion binding]; metal-binding site 290398008642 putative oxidoreductase; Provisional; Region: PRK11579 290398008643 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290398008644 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290398008645 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 290398008646 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 290398008647 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398008648 Walker A motif; other site 290398008649 ATP binding site [chemical binding]; other site 290398008650 Walker B motif; other site 290398008651 arginine finger; other site 290398008652 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 290398008653 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398008654 dimer interface [polypeptide binding]; other site 290398008655 phosphorylation site [posttranslational modification] 290398008656 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398008657 ATP binding site [chemical binding]; other site 290398008658 Mg2+ binding site [ion binding]; other site 290398008659 G-X-G motif; other site 290398008660 Response regulator receiver domain; Region: Response_reg; pfam00072 290398008661 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398008662 active site 290398008663 phosphorylation site [posttranslational modification] 290398008664 intermolecular recognition site; other site 290398008665 dimerization interface [polypeptide binding]; other site 290398008666 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 290398008667 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 290398008668 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 290398008669 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 290398008670 MOSC domain; Region: MOSC; pfam03473 290398008671 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 290398008672 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290398008673 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 290398008674 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 290398008675 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398008676 membrane-bound complex binding site; other site 290398008677 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290398008678 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 290398008679 EamA-like transporter family; Region: EamA; pfam00892 290398008680 EamA-like transporter family; Region: EamA; pfam00892 290398008681 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 290398008682 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398008683 Walker A/P-loop; other site 290398008684 ATP binding site [chemical binding]; other site 290398008685 Q-loop/lid; other site 290398008686 ABC transporter signature motif; other site 290398008687 Walker B; other site 290398008688 D-loop; other site 290398008689 H-loop/switch region; other site 290398008690 TOBE domain; Region: TOBE; pfam03459 290398008691 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290398008692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398008693 dimer interface [polypeptide binding]; other site 290398008694 conserved gate region; other site 290398008695 putative PBP binding loops; other site 290398008696 ABC-ATPase subunit interface; other site 290398008697 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 290398008698 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290398008699 enterobactin receptor protein; Provisional; Region: PRK13483 290398008700 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398008701 N-terminal plug; other site 290398008702 ligand-binding site [chemical binding]; other site 290398008703 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398008704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398008705 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398008706 dimerization interface [polypeptide binding]; other site 290398008707 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 290398008708 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 290398008709 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290398008710 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398008711 Fusaric acid resistance protein family; Region: FUSC; pfam04632 290398008712 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 290398008713 putative acetyltransferase; Provisional; Region: PRK03624 290398008714 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398008715 Coenzyme A binding pocket [chemical binding]; other site 290398008716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398008717 NAD(P) binding site [chemical binding]; other site 290398008718 active site 290398008719 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 290398008720 glutaredoxin 2; Provisional; Region: PRK10387 290398008721 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 290398008722 putative N-terminal domain interface [polypeptide binding]; other site 290398008723 putative dimer interface [polypeptide binding]; other site 290398008724 putative substrate binding pocket (H-site) [chemical binding]; other site 290398008725 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 290398008726 L-lactate permease; Region: Lactate_perm; cl00701 290398008727 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 290398008728 FAD binding domain; Region: FAD_binding_4; pfam01565 290398008729 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 290398008730 FAD binding domain; Region: FAD_binding_4; pfam01565 290398008731 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 290398008732 Cysteine-rich domain; Region: CCG; pfam02754 290398008733 Cysteine-rich domain; Region: CCG; pfam02754 290398008734 Domain of unknown function (DUF336); Region: DUF336; cl01249 290398008735 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 290398008736 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 290398008737 putative molybdopterin cofactor binding site [chemical binding]; other site 290398008738 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 290398008739 putative molybdopterin cofactor binding site; other site 290398008740 aminodeoxychorismate synthase; Provisional; Region: PRK07508 290398008741 chorismate binding enzyme; Region: Chorismate_bind; cl10555 290398008742 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 290398008743 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290398008744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398008745 catalytic residue [active] 290398008746 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 290398008747 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 290398008748 glutamine binding [chemical binding]; other site 290398008749 catalytic triad [active] 290398008750 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 290398008751 sulfite reductase subunit beta; Provisional; Region: PRK13504 290398008752 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290398008753 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290398008754 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 290398008755 Flavodoxin; Region: Flavodoxin_1; pfam00258 290398008756 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 290398008757 FAD binding pocket [chemical binding]; other site 290398008758 FAD binding motif [chemical binding]; other site 290398008759 catalytic residues [active] 290398008760 NAD binding pocket [chemical binding]; other site 290398008761 phosphate binding motif [ion binding]; other site 290398008762 beta-alpha-beta structure motif; other site 290398008763 Dienelactone hydrolase family; Region: DLH; pfam01738 290398008764 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 290398008765 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290398008766 putative C-terminal domain interface [polypeptide binding]; other site 290398008767 putative GSH binding site (G-site) [chemical binding]; other site 290398008768 putative dimer interface [polypeptide binding]; other site 290398008769 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 290398008770 putative substrate binding pocket (H-site) [chemical binding]; other site 290398008771 putative N-terminal domain interface [polypeptide binding]; other site 290398008772 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 290398008773 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 290398008774 intersubunit interface [polypeptide binding]; other site 290398008775 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290398008776 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 290398008777 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 290398008778 ABC-ATPase subunit interface; other site 290398008779 dimer interface [polypeptide binding]; other site 290398008780 putative PBP binding regions; other site 290398008781 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290398008782 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 290398008783 ABC-ATPase subunit interface; other site 290398008784 dimer interface [polypeptide binding]; other site 290398008785 putative PBP binding regions; other site 290398008786 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290398008787 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290398008788 Walker A/P-loop; other site 290398008789 ATP binding site [chemical binding]; other site 290398008790 Q-loop/lid; other site 290398008791 ABC transporter signature motif; other site 290398008792 Walker B; other site 290398008793 D-loop; other site 290398008794 H-loop/switch region; other site 290398008795 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 290398008796 hypothetical protein; Provisional; Region: PRK11019 290398008797 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 290398008798 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 290398008799 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290398008800 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 290398008801 inhibitor site; inhibition site 290398008802 active site 290398008803 dimer interface [polypeptide binding]; other site 290398008804 catalytic residue [active] 290398008805 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398008806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398008807 DNA-binding site [nucleotide binding]; DNA binding site 290398008808 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290398008809 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 290398008810 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 290398008811 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 290398008812 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290398008813 putative active site [active] 290398008814 catalytic triad [active] 290398008815 putative dimer interface [polypeptide binding]; other site 290398008816 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 290398008817 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 290398008818 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 290398008819 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 290398008820 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398008821 motif II; other site 290398008822 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 290398008823 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290398008824 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 290398008825 EamA-like transporter family; Region: EamA; pfam00892 290398008826 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290398008827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398008828 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398008829 dimerization interface [polypeptide binding]; other site 290398008830 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 290398008831 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290398008832 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290398008833 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398008834 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398008835 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398008836 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 290398008837 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 290398008838 putative active site [active] 290398008839 putative metal binding site [ion binding]; other site 290398008840 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 290398008841 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 290398008842 ectoine utilization protein EutC; Validated; Region: PRK08291 290398008843 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 290398008844 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 290398008845 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 290398008846 tetramer interface [polypeptide binding]; other site 290398008847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398008848 catalytic residue [active] 290398008849 hypothetical protein; Provisional; Region: PRK07482 290398008850 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398008851 inhibitor-cofactor binding pocket; inhibition site 290398008852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398008853 catalytic residue [active] 290398008854 succinic semialdehyde dehydrogenase; Region: PLN02278 290398008855 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 290398008856 tetramerization interface [polypeptide binding]; other site 290398008857 NAD(P) binding site [chemical binding]; other site 290398008858 catalytic residues [active] 290398008859 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 290398008860 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 290398008861 putative molybdopterin cofactor binding site [chemical binding]; other site 290398008862 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 290398008863 putative molybdopterin cofactor binding site; other site 290398008864 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 290398008865 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398008866 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398008867 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398008868 dimerization interface [polypeptide binding]; other site 290398008869 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290398008870 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 290398008871 putative DNA binding site [nucleotide binding]; other site 290398008872 putative Zn2+ binding site [ion binding]; other site 290398008873 AsnC family; Region: AsnC_trans_reg; pfam01037 290398008874 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 290398008875 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 290398008876 putative active site [active] 290398008877 Zn binding site [ion binding]; other site 290398008878 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 290398008879 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290398008880 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290398008881 active site 290398008882 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 290398008883 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398008884 DNA-binding site [nucleotide binding]; DNA binding site 290398008885 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398008886 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398008887 homodimer interface [polypeptide binding]; other site 290398008888 catalytic residue [active] 290398008889 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 290398008890 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 290398008891 putative ligand binding site [chemical binding]; other site 290398008892 NAD binding site [chemical binding]; other site 290398008893 dimerization interface [polypeptide binding]; other site 290398008894 catalytic site [active] 290398008895 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290398008896 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290398008897 Walker A/P-loop; other site 290398008898 ATP binding site [chemical binding]; other site 290398008899 Q-loop/lid; other site 290398008900 ABC transporter signature motif; other site 290398008901 Walker B; other site 290398008902 D-loop; other site 290398008903 H-loop/switch region; other site 290398008904 TOBE domain; Region: TOBE_2; pfam08402 290398008905 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290398008906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398008907 dimer interface [polypeptide binding]; other site 290398008908 conserved gate region; other site 290398008909 putative PBP binding loops; other site 290398008910 ABC-ATPase subunit interface; other site 290398008911 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398008912 dimer interface [polypeptide binding]; other site 290398008913 conserved gate region; other site 290398008914 ABC-ATPase subunit interface; other site 290398008915 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290398008916 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290398008917 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 290398008918 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 290398008919 active site 290398008920 intersubunit interface [polypeptide binding]; other site 290398008921 catalytic residue [active] 290398008922 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 290398008923 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 290398008924 putative active site [active] 290398008925 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 290398008926 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 290398008927 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 290398008928 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 290398008929 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290398008930 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 290398008931 putative active site [active] 290398008932 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 290398008933 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 290398008934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398008935 Walker A/P-loop; other site 290398008936 ATP binding site [chemical binding]; other site 290398008937 ABC transporter signature motif; other site 290398008938 Walker B; other site 290398008939 D-loop; other site 290398008940 H-loop/switch region; other site 290398008941 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 290398008942 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 290398008943 hypothetical protein; Provisional; Region: PRK02237 290398008944 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 290398008945 Phosphopantetheine attachment site; Region: PP-binding; cl09936 290398008946 Predicted membrane protein [Function unknown]; Region: COG4648 290398008947 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 290398008948 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290398008949 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290398008950 acyl-activating enzyme (AAE) consensus motif; other site 290398008951 acyl-activating enzyme (AAE) consensus motif; other site 290398008952 AMP binding site [chemical binding]; other site 290398008953 active site 290398008954 CoA binding site [chemical binding]; other site 290398008955 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 290398008956 active site 2 [active] 290398008957 active site 1 [active] 290398008958 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 290398008959 Ligand binding site; other site 290398008960 Putative Catalytic site; other site 290398008961 DXD motif; other site 290398008962 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 290398008963 putative acyl-acceptor binding pocket; other site 290398008964 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 290398008965 Predicted exporter [General function prediction only]; Region: COG4258 290398008966 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 290398008967 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 290398008968 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 290398008969 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 290398008970 dimer interface [polypeptide binding]; other site 290398008971 active site 290398008972 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 290398008973 putative active site 1 [active] 290398008974 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290398008975 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 290398008976 NAD(P) binding site [chemical binding]; other site 290398008977 homotetramer interface [polypeptide binding]; other site 290398008978 homodimer interface [polypeptide binding]; other site 290398008979 active site 290398008980 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 290398008981 homotrimer interaction site [polypeptide binding]; other site 290398008982 putative active site [active] 290398008983 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 290398008984 Ligand Binding Site [chemical binding]; other site 290398008985 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 290398008986 Ligand Binding Site [chemical binding]; other site 290398008987 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 290398008988 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 290398008989 Sulfate transporter family; Region: Sulfate_transp; pfam00916 290398008990 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 290398008991 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 290398008992 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290398008993 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 290398008994 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 290398008995 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 290398008996 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 290398008997 dimer interface [polypeptide binding]; other site 290398008998 active site residues [active] 290398008999 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 290398009000 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 290398009001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398009002 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398009003 dimerization interface [polypeptide binding]; other site 290398009004 Protein of unknown function (DUF971); Region: DUF971; cl01414 290398009005 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 290398009006 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 290398009007 substrate binding pocket [chemical binding]; other site 290398009008 active site 290398009009 iron coordination sites [ion binding]; other site 290398009010 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290398009011 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 290398009012 Uncharacterized conserved protein [Function unknown]; Region: COG0398 290398009013 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 290398009014 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290398009015 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 290398009016 putative ADP-binding pocket [chemical binding]; other site 290398009017 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398009018 transcriptional activator TtdR; Provisional; Region: PRK09801 290398009019 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 290398009020 putative effector binding pocket; other site 290398009021 putative dimerization interface [polypeptide binding]; other site 290398009022 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290398009023 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 290398009024 tartrate dehydrogenase; Region: TTC; TIGR02089 290398009025 Hemerythrin family; Region: Hemerythrin-like; cl15774 290398009026 Fe binding site [ion binding]; other site 290398009027 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 290398009028 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290398009029 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290398009030 dimer interface [polypeptide binding]; other site 290398009031 putative CheW interface [polypeptide binding]; other site 290398009032 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 290398009033 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 290398009034 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 290398009035 putative active site [active] 290398009036 Zn binding site [ion binding]; other site 290398009037 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 290398009038 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290398009039 Walker A/P-loop; other site 290398009040 ATP binding site [chemical binding]; other site 290398009041 Q-loop/lid; other site 290398009042 ABC transporter signature motif; other site 290398009043 Walker B; other site 290398009044 D-loop; other site 290398009045 H-loop/switch region; other site 290398009046 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290398009047 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 290398009048 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398009049 putative PBP binding loops; other site 290398009050 dimer interface [polypeptide binding]; other site 290398009051 ABC-ATPase subunit interface; other site 290398009052 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398009053 dimer interface [polypeptide binding]; other site 290398009054 conserved gate region; other site 290398009055 putative PBP binding loops; other site 290398009056 ABC-ATPase subunit interface; other site 290398009057 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398009058 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290398009059 substrate binding pocket [chemical binding]; other site 290398009060 membrane-bound complex binding site; other site 290398009061 hinge residues; other site 290398009062 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 290398009063 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 290398009064 active site 290398009065 Zn binding site [ion binding]; other site 290398009066 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 290398009067 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 290398009068 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 290398009069 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 290398009070 conserved cys residue [active] 290398009071 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 290398009072 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398009073 Coenzyme A binding pocket [chemical binding]; other site 290398009074 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398009075 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290398009076 substrate binding pocket [chemical binding]; other site 290398009077 membrane-bound complex binding site; other site 290398009078 hinge residues; other site 290398009079 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 290398009080 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 290398009081 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 290398009082 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 290398009083 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 290398009084 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398009085 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398009086 AlkA N-terminal domain; Region: AlkA_N; pfam06029 290398009087 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 290398009088 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290398009089 minor groove reading motif; other site 290398009090 helix-hairpin-helix signature motif; other site 290398009091 substrate binding pocket [chemical binding]; other site 290398009092 active site 290398009093 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 290398009094 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 290398009095 DNA binding site [nucleotide binding] 290398009096 active site 290398009097 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 290398009098 Uncharacterized conserved protein [Function unknown]; Region: COG1359 290398009099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398009100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398009101 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398009102 dimerization interface [polypeptide binding]; other site 290398009103 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 290398009104 cyanate transporter; Region: CynX; TIGR00896 290398009105 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290398009106 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398009107 Coenzyme A binding pocket [chemical binding]; other site 290398009108 succinylarginine dihydrolase; Provisional; Region: PRK13281 290398009109 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 290398009110 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 290398009111 NAD(P) binding site [chemical binding]; other site 290398009112 catalytic residues [active] 290398009113 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 290398009114 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 290398009115 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 290398009116 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 290398009117 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 290398009118 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398009119 inhibitor-cofactor binding pocket; inhibition site 290398009120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398009121 catalytic residue [active] 290398009122 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290398009123 classical (c) SDRs; Region: SDR_c; cd05233 290398009124 NAD(P) binding site [chemical binding]; other site 290398009125 active site 290398009126 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398009127 S-adenosylmethionine binding site [chemical binding]; other site 290398009128 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290398009129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398009130 Coenzyme A binding pocket [chemical binding]; other site 290398009131 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 290398009132 homodimer interaction site [polypeptide binding]; other site 290398009133 cofactor binding site; other site 290398009134 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 290398009135 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 290398009136 ATP binding site [chemical binding]; other site 290398009137 active site 290398009138 substrate binding site [chemical binding]; other site 290398009139 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 290398009140 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 290398009141 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 290398009142 dihydrodipicolinate synthase; Region: dapA; TIGR00674 290398009143 dimer interface [polypeptide binding]; other site 290398009144 active site 290398009145 catalytic residue [active] 290398009146 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 290398009147 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 290398009148 catalytic triad [active] 290398009149 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290398009150 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290398009151 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 290398009152 CPxP motif; other site 290398009153 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 290398009154 Peptidase family M48; Region: Peptidase_M48; cl12018 290398009155 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 290398009156 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 290398009157 conserved cys residue [active] 290398009158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398009159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398009160 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 290398009161 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 290398009162 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 290398009163 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 290398009164 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 290398009165 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 290398009166 catalytic residues [active] 290398009167 dimer interface [polypeptide binding]; other site 290398009168 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 290398009169 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 290398009170 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_38; cd04697 290398009171 nudix motif; other site 290398009172 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 290398009173 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290398009174 active site 290398009175 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398009176 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 290398009177 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398009178 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 290398009179 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 290398009180 Trp docking motif [polypeptide binding]; other site 290398009181 putative active site [active] 290398009182 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 290398009183 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 290398009184 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 290398009185 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 290398009186 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 290398009187 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 290398009188 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 290398009189 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 290398009190 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 290398009191 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 290398009192 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 290398009193 Protein export membrane protein; Region: SecD_SecF; pfam02355 290398009194 PAS domain; Region: PAS; smart00091 290398009195 PAS domain; Region: PAS_9; pfam13426 290398009196 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290398009197 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398009198 Walker A motif; other site 290398009199 ATP binding site [chemical binding]; other site 290398009200 Walker B motif; other site 290398009201 arginine finger; other site 290398009202 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 290398009203 agmatinase; Region: agmatinase; TIGR01230 290398009204 oligomer interface [polypeptide binding]; other site 290398009205 putative active site [active] 290398009206 Mn binding site [ion binding]; other site 290398009207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 290398009208 Nucleoside recognition; Region: Gate; pfam07670 290398009209 hypothetical protein; Provisional; Region: PRK07524 290398009210 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290398009211 PYR/PP interface [polypeptide binding]; other site 290398009212 dimer interface [polypeptide binding]; other site 290398009213 TPP binding site [chemical binding]; other site 290398009214 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290398009215 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 290398009216 TPP-binding site [chemical binding]; other site 290398009217 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 290398009218 Na binding site [ion binding]; other site 290398009219 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290398009220 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 290398009221 putative active site [active] 290398009222 catalytic triad [active] 290398009223 putative dimer interface [polypeptide binding]; other site 290398009224 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290398009225 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290398009226 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 290398009227 NAD(P) binding site [chemical binding]; other site 290398009228 catalytic residues [active] 290398009229 catalytic residues [active] 290398009230 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 290398009231 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290398009232 active site 290398009233 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 290398009234 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290398009235 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 290398009236 Rrf2 family protein; Region: rrf2_super; TIGR00738 290398009237 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 290398009238 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 290398009239 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290398009240 catalytic residue [active] 290398009241 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 290398009242 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 290398009243 active site 290398009244 multimer interface [polypeptide binding]; other site 290398009245 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 290398009246 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398009247 FeS/SAM binding site; other site 290398009248 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 290398009249 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 290398009250 binding surface 290398009251 TPR motif; other site 290398009252 cytoskeletal protein RodZ; Provisional; Region: PRK10856 290398009253 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398009254 non-specific DNA binding site [nucleotide binding]; other site 290398009255 salt bridge; other site 290398009256 sequence-specific DNA binding site [nucleotide binding]; other site 290398009257 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 290398009258 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 290398009259 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 290398009260 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 290398009261 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 290398009262 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 290398009263 dimer interface [polypeptide binding]; other site 290398009264 motif 1; other site 290398009265 active site 290398009266 motif 2; other site 290398009267 motif 3; other site 290398009268 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 290398009269 anticodon binding site; other site 290398009270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 290398009271 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 290398009272 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 290398009273 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 290398009274 Trp docking motif [polypeptide binding]; other site 290398009275 active site 290398009276 GTP-binding protein Der; Reviewed; Region: PRK00093 290398009277 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 290398009278 G1 box; other site 290398009279 GTP/Mg2+ binding site [chemical binding]; other site 290398009280 Switch I region; other site 290398009281 G2 box; other site 290398009282 Switch II region; other site 290398009283 G3 box; other site 290398009284 G4 box; other site 290398009285 G5 box; other site 290398009286 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 290398009287 G1 box; other site 290398009288 GTP/Mg2+ binding site [chemical binding]; other site 290398009289 Switch I region; other site 290398009290 G2 box; other site 290398009291 G3 box; other site 290398009292 Switch II region; other site 290398009293 G4 box; other site 290398009294 G5 box; other site 290398009295 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 290398009296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398009297 active site 290398009298 phosphorylation site [posttranslational modification] 290398009299 intermolecular recognition site; other site 290398009300 dimerization interface [polypeptide binding]; other site 290398009301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398009302 metal binding site [ion binding]; metal-binding site 290398009303 active site 290398009304 I-site; other site 290398009305 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 290398009306 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398009307 Walker A motif; other site 290398009308 ATP binding site [chemical binding]; other site 290398009309 Walker B motif; other site 290398009310 Peptidase family M48; Region: Peptidase_M48; pfam01435 290398009311 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 290398009312 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 290398009313 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 290398009314 shikimate binding site; other site 290398009315 NAD(P) binding site [chemical binding]; other site 290398009316 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 290398009317 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 290398009318 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 290398009319 DNA protecting protein DprA; Region: dprA; TIGR00732 290398009320 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 290398009321 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 290398009322 active site 290398009323 catalytic residues [active] 290398009324 metal binding site [ion binding]; metal-binding site 290398009325 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 290398009326 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 290398009327 putative active site [active] 290398009328 substrate binding site [chemical binding]; other site 290398009329 putative cosubstrate binding site; other site 290398009330 catalytic site [active] 290398009331 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 290398009332 substrate binding site [chemical binding]; other site 290398009333 16S rRNA methyltransferase B; Provisional; Region: PRK10901 290398009334 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 290398009335 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398009336 S-adenosylmethionine binding site [chemical binding]; other site 290398009337 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 290398009338 catalytic triad [active] 290398009339 metal binding site [ion binding]; metal-binding site 290398009340 conserved cis-peptide bond; other site 290398009341 Dodecin; Region: Dodecin; pfam07311 290398009342 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 290398009343 TrkA-N domain; Region: TrkA_N; pfam02254 290398009344 TrkA-C domain; Region: TrkA_C; pfam02080 290398009345 TrkA-N domain; Region: TrkA_N; pfam02254 290398009346 TrkA-C domain; Region: TrkA_C; pfam02080 290398009347 Cation transport protein; Region: TrkH; cl17365 290398009348 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 290398009349 serine/threonine transporter SstT; Provisional; Region: PRK13628 290398009350 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 290398009351 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 290398009352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398009353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398009354 metal binding site [ion binding]; metal-binding site 290398009355 active site 290398009356 I-site; other site 290398009357 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 290398009358 putative FMN binding site [chemical binding]; other site 290398009359 NADPH bind site [chemical binding]; other site 290398009360 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398009361 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 290398009362 conserved cys residue [active] 290398009363 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 290398009364 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 290398009365 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 290398009366 sequence-specific DNA binding site [nucleotide binding]; other site 290398009367 salt bridge; other site 290398009368 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290398009369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398009370 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 290398009371 dimerization interface [polypeptide binding]; other site 290398009372 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 290398009373 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290398009374 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290398009375 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290398009376 active site 290398009377 oxidoreductase; Region: PLN02485 290398009378 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 290398009379 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 290398009380 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290398009381 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 290398009382 BCCT family transporter; Region: BCCT; pfam02028 290398009383 BCCT family transporter; Region: BCCT; pfam02028 290398009384 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 290398009385 Uncharacterized conserved protein [Function unknown]; Region: COG3148 290398009386 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 290398009387 Sodium Bile acid symporter family; Region: SBF; pfam01758 290398009388 NAD-dependent deacetylase; Provisional; Region: PRK00481 290398009389 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 290398009390 NAD+ binding site [chemical binding]; other site 290398009391 substrate binding site [chemical binding]; other site 290398009392 Zn binding site [ion binding]; other site 290398009393 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 290398009394 probable active site [active] 290398009395 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 290398009396 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 290398009397 putative ATP binding site [chemical binding]; other site 290398009398 putative substrate interface [chemical binding]; other site 290398009399 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 290398009400 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 290398009401 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 290398009402 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 290398009403 NAD binding site [chemical binding]; other site 290398009404 ATP-grasp domain; Region: ATP-grasp; pfam02222 290398009405 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 290398009406 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 290398009407 heme binding site [chemical binding]; other site 290398009408 ferroxidase pore; other site 290398009409 ferroxidase diiron center [ion binding]; other site 290398009410 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 290398009411 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290398009412 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290398009413 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290398009414 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 290398009415 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290398009416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398009417 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 290398009418 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 290398009419 dimer interface [polypeptide binding]; other site 290398009420 active site 290398009421 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 290398009422 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 290398009423 NAD binding site [chemical binding]; other site 290398009424 substrate binding site [chemical binding]; other site 290398009425 catalytic Zn binding site [ion binding]; other site 290398009426 tetramer interface [polypeptide binding]; other site 290398009427 structural Zn binding site [ion binding]; other site 290398009428 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 290398009429 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290398009430 NAD(P) binding site [chemical binding]; other site 290398009431 catalytic residues [active] 290398009432 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 290398009433 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290398009434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398009435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398009436 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 290398009437 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 290398009438 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 290398009439 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 290398009440 multifunctional aminopeptidase A; Provisional; Region: PRK00913 290398009441 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 290398009442 interface (dimer of trimers) [polypeptide binding]; other site 290398009443 Substrate-binding/catalytic site; other site 290398009444 Zn-binding sites [ion binding]; other site 290398009445 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 290398009446 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 290398009447 homodimer interface [polypeptide binding]; other site 290398009448 substrate-cofactor binding pocket; other site 290398009449 catalytic residue [active] 290398009450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290398009451 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 290398009452 NAD(P) binding site [chemical binding]; other site 290398009453 active site 290398009454 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 290398009455 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 290398009456 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290398009457 active site 290398009458 HIGH motif; other site 290398009459 nucleotide binding site [chemical binding]; other site 290398009460 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 290398009461 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 290398009462 active site 290398009463 KMSKS motif; other site 290398009464 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 290398009465 tRNA binding surface [nucleotide binding]; other site 290398009466 anticodon binding site; other site 290398009467 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 290398009468 Ion transport protein; Region: Ion_trans; pfam00520 290398009469 Ion channel; Region: Ion_trans_2; pfam07885 290398009470 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290398009471 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290398009472 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290398009473 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 290398009474 active site 290398009475 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 290398009476 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398009477 putative substrate translocation pore; other site 290398009478 POT family; Region: PTR2; cl17359 290398009479 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 290398009480 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290398009481 metal binding triad; other site 290398009482 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 290398009483 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290398009484 metal binding triad; other site 290398009485 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 290398009486 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 290398009487 Na binding site [ion binding]; other site 290398009488 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 290398009489 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 290398009490 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 290398009491 NADP binding site [chemical binding]; other site 290398009492 dimer interface [polypeptide binding]; other site 290398009493 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 290398009494 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398009495 S-adenosylmethionine binding site [chemical binding]; other site 290398009496 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 290398009497 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 290398009498 active site 290398009499 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 290398009500 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 290398009501 active site 290398009502 (T/H)XGH motif; other site 290398009503 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 290398009504 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 290398009505 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 290398009506 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 290398009507 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 290398009508 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 290398009509 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 290398009510 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398009511 dimer interface [polypeptide binding]; other site 290398009512 conserved gate region; other site 290398009513 ABC-ATPase subunit interface; other site 290398009514 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 290398009515 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 290398009516 Walker A/P-loop; other site 290398009517 ATP binding site [chemical binding]; other site 290398009518 Q-loop/lid; other site 290398009519 ABC transporter signature motif; other site 290398009520 Walker B; other site 290398009521 D-loop; other site 290398009522 H-loop/switch region; other site 290398009523 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 290398009524 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398009525 putative PBP binding loops; other site 290398009526 dimer interface [polypeptide binding]; other site 290398009527 ABC-ATPase subunit interface; other site 290398009528 Predicted small secreted protein [Function unknown]; Region: COG5510 290398009529 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 290398009530 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 290398009531 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 290398009532 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 290398009533 dimerization interface [polypeptide binding]; other site 290398009534 DPS ferroxidase diiron center [ion binding]; other site 290398009535 ion pore; other site 290398009536 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 290398009537 RmuC family; Region: RmuC; pfam02646 290398009538 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 290398009539 intracellular protease, PfpI family; Region: PfpI; TIGR01382 290398009540 proposed catalytic triad [active] 290398009541 conserved cys residue [active] 290398009542 Uncharacterized conserved protein [Function unknown]; Region: COG4850 290398009543 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 290398009544 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 290398009545 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 290398009546 metal binding site [ion binding]; metal-binding site 290398009547 dimer interface [polypeptide binding]; other site 290398009548 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 290398009549 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 290398009550 Helicase; Region: Helicase_RecD; pfam05127 290398009551 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 290398009552 thioredoxin reductase; Provisional; Region: PRK10262 290398009553 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398009554 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398009555 peroxidase; Provisional; Region: PRK15000 290398009556 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 290398009557 dimer interface [polypeptide binding]; other site 290398009558 decamer (pentamer of dimers) interface [polypeptide binding]; other site 290398009559 catalytic triad [active] 290398009560 peroxidatic and resolving cysteines [active] 290398009561 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 290398009562 aconitate hydratase; Validated; Region: PRK09277 290398009563 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 290398009564 substrate binding site [chemical binding]; other site 290398009565 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 290398009566 ligand binding site [chemical binding]; other site 290398009567 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 290398009568 substrate binding site [chemical binding]; other site 290398009569 malate dehydrogenase; Provisional; Region: PRK13529 290398009570 Malic enzyme, N-terminal domain; Region: malic; pfam00390 290398009571 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 290398009572 NAD(P) binding site [chemical binding]; other site 290398009573 putative inner membrane protein; Provisional; Region: PRK11099 290398009574 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 290398009575 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 290398009576 active site 290398009577 HIGH motif; other site 290398009578 dimer interface [polypeptide binding]; other site 290398009579 KMSKS motif; other site 290398009580 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 290398009581 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 290398009582 hexamer interface [polypeptide binding]; other site 290398009583 ligand binding site [chemical binding]; other site 290398009584 putative active site [active] 290398009585 NAD(P) binding site [chemical binding]; other site 290398009586 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 290398009587 PUA domain; Region: PUA; cl00607 290398009588 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 290398009589 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 290398009590 putative RNA binding site [nucleotide binding]; other site 290398009591 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398009592 S-adenosylmethionine binding site [chemical binding]; other site 290398009593 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 290398009594 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 290398009595 DNA binding site [nucleotide binding] 290398009596 catalytic residue [active] 290398009597 H2TH interface [polypeptide binding]; other site 290398009598 putative catalytic residues [active] 290398009599 turnover-facilitating residue; other site 290398009600 intercalation triad [nucleotide binding]; other site 290398009601 8OG recognition residue [nucleotide binding]; other site 290398009602 putative reading head residues; other site 290398009603 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 290398009604 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 290398009605 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 290398009606 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 290398009607 hypothetical protein; Reviewed; Region: PRK00024 290398009608 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 290398009609 MPN+ (JAMM) motif; other site 290398009610 Zinc-binding site [ion binding]; other site 290398009611 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290398009612 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398009613 DNA-binding site [nucleotide binding]; DNA binding site 290398009614 FCD domain; Region: FCD; pfam07729 290398009615 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 290398009616 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 290398009617 metal binding site [ion binding]; metal-binding site 290398009618 substrate binding pocket [chemical binding]; other site 290398009619 putative oxidoreductase; Provisional; Region: PRK10083 290398009620 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 290398009621 putative NAD(P) binding site [chemical binding]; other site 290398009622 catalytic Zn binding site [ion binding]; other site 290398009623 structural Zn binding site [ion binding]; other site 290398009624 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398009625 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 290398009626 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398009627 DctM-like transporters; Region: DctM; pfam06808 290398009628 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398009629 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 290398009630 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290398009631 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290398009632 mannonate dehydratase; Provisional; Region: PRK03906 290398009633 mannonate dehydratase; Region: uxuA; TIGR00695 290398009634 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 290398009635 Flavoprotein; Region: Flavoprotein; pfam02441 290398009636 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 290398009637 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 290398009638 trimer interface [polypeptide binding]; other site 290398009639 active site 290398009640 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 290398009641 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 290398009642 active site 290398009643 substrate binding site [chemical binding]; other site 290398009644 metal binding site [ion binding]; metal-binding site 290398009645 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 290398009646 feedback inhibition sensing region; other site 290398009647 homohexameric interface [polypeptide binding]; other site 290398009648 nucleotide binding site [chemical binding]; other site 290398009649 N-acetyl-L-glutamate binding site [chemical binding]; other site 290398009650 division inhibitor protein; Provisional; Region: slmA; PRK09480 290398009651 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290398009652 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 290398009653 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290398009654 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 290398009655 DNA binding residues [nucleotide binding] 290398009656 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 290398009657 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 290398009658 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398009659 Walker A/P-loop; other site 290398009660 ATP binding site [chemical binding]; other site 290398009661 Q-loop/lid; other site 290398009662 ABC transporter signature motif; other site 290398009663 Walker B; other site 290398009664 D-loop; other site 290398009665 H-loop/switch region; other site 290398009666 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 290398009667 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 290398009668 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 290398009669 P loop; other site 290398009670 GTP binding site [chemical binding]; other site 290398009671 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 290398009672 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398009673 S-adenosylmethionine binding site [chemical binding]; other site 290398009674 Protein of unknown function (DUF904); Region: DUF904; pfam06005 290398009675 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 290398009676 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290398009677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290398009678 Coenzyme A binding pocket [chemical binding]; other site 290398009679 BolA-like protein; Region: BolA; cl00386 290398009680 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398009681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290398009682 putative substrate translocation pore; other site 290398009683 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 290398009684 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 290398009685 dimer interface [polypeptide binding]; other site 290398009686 putative anticodon binding site; other site 290398009687 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 290398009688 motif 1; other site 290398009689 active site 290398009690 motif 2; other site 290398009691 motif 3; other site 290398009692 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 290398009693 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 290398009694 peptide binding site [polypeptide binding]; other site 290398009695 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 290398009696 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398009697 dimer interface [polypeptide binding]; other site 290398009698 conserved gate region; other site 290398009699 putative PBP binding loops; other site 290398009700 ABC-ATPase subunit interface; other site 290398009701 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 290398009702 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 290398009703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398009704 dimer interface [polypeptide binding]; other site 290398009705 conserved gate region; other site 290398009706 ABC-ATPase subunit interface; other site 290398009707 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 290398009708 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290398009709 Walker A/P-loop; other site 290398009710 ATP binding site [chemical binding]; other site 290398009711 Q-loop/lid; other site 290398009712 ABC transporter signature motif; other site 290398009713 Walker B; other site 290398009714 D-loop; other site 290398009715 H-loop/switch region; other site 290398009716 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290398009717 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290398009718 Walker A/P-loop; other site 290398009719 ATP binding site [chemical binding]; other site 290398009720 Q-loop/lid; other site 290398009721 ABC transporter signature motif; other site 290398009722 Walker B; other site 290398009723 D-loop; other site 290398009724 H-loop/switch region; other site 290398009725 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290398009726 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 290398009727 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 290398009728 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 290398009729 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 290398009730 DNA binding residues [nucleotide binding] 290398009731 dimer interface [polypeptide binding]; other site 290398009732 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 290398009733 copper exporting ATPase; Provisional; Region: copA; PRK10671 290398009734 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 290398009735 metal-binding site [ion binding] 290398009736 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290398009737 Soluble P-type ATPase [General function prediction only]; Region: COG4087 290398009738 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290398009739 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 290398009740 putative metal binding site [ion binding]; other site 290398009741 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 290398009742 DHH family; Region: DHH; pfam01368 290398009743 DHHA1 domain; Region: DHHA1; pfam02272 290398009744 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 290398009745 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 290398009746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398009747 catalytic residue [active] 290398009748 homoserine dehydrogenase; Provisional; Region: PRK06349 290398009749 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 290398009750 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 290398009751 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 290398009752 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 290398009753 dimerization domain [polypeptide binding]; other site 290398009754 dimer interface [polypeptide binding]; other site 290398009755 catalytic residues [active] 290398009756 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 290398009757 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 290398009758 active site 290398009759 Int/Topo IB signature motif; other site 290398009760 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 290398009761 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 290398009762 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 290398009763 RimM N-terminal domain; Region: RimM; pfam01782 290398009764 PRC-barrel domain; Region: PRC; pfam05239 290398009765 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 290398009766 signal recognition particle protein; Provisional; Region: PRK10867 290398009767 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 290398009768 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 290398009769 P loop; other site 290398009770 GTP binding site [chemical binding]; other site 290398009771 Signal peptide binding domain; Region: SRP_SPB; pfam02978 290398009772 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 290398009773 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 290398009774 Domain of unknown function DUF21; Region: DUF21; pfam01595 290398009775 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 290398009776 Transporter associated domain; Region: CorC_HlyC; smart01091 290398009777 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 290398009778 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290398009779 putative acyl-acceptor binding pocket; other site 290398009780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290398009781 WHG domain; Region: WHG; pfam13305 290398009782 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 290398009783 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 290398009784 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290398009785 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290398009786 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290398009787 exonuclease I; Provisional; Region: sbcB; PRK11779 290398009788 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 290398009789 active site 290398009790 catalytic site [active] 290398009791 substrate binding site [chemical binding]; other site 290398009792 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 290398009793 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 290398009794 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 290398009795 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 290398009796 Switch I; other site 290398009797 Switch II; other site 290398009798 septum formation inhibitor; Reviewed; Region: minC; PRK00339 290398009799 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 290398009800 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 290398009801 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 290398009802 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 290398009803 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 290398009804 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 290398009805 NAD(P) binding site [chemical binding]; other site 290398009806 homotetramer interface [polypeptide binding]; other site 290398009807 homodimer interface [polypeptide binding]; other site 290398009808 active site 290398009809 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290398009810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398009811 active site 290398009812 phosphorylation site [posttranslational modification] 290398009813 intermolecular recognition site; other site 290398009814 dimerization interface [polypeptide binding]; other site 290398009815 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 290398009816 DNA binding residues [nucleotide binding] 290398009817 dimerization interface [polypeptide binding]; other site 290398009818 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290398009819 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 290398009820 active site 290398009821 phosphorylation site [posttranslational modification] 290398009822 circadian clock protein KaiC; Reviewed; Region: PRK09302 290398009823 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 290398009824 Walker A motif; other site 290398009825 ATP binding site [chemical binding]; other site 290398009826 Walker B motif; other site 290398009827 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 290398009828 ATP binding site [chemical binding]; other site 290398009829 Walker A motif; other site 290398009830 Walker B motif; other site 290398009831 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290398009832 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290398009833 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290398009834 metal binding site [ion binding]; metal-binding site 290398009835 active site 290398009836 I-site; other site 290398009837 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398009838 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 290398009839 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 290398009840 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 290398009841 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 290398009842 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398009843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398009844 homodimer interface [polypeptide binding]; other site 290398009845 catalytic residue [active] 290398009846 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 290398009847 active site 290398009848 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 290398009849 putative deacylase active site [active] 290398009850 Protein of unknown function (DUF501); Region: DUF501; pfam04417 290398009851 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 290398009852 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 290398009853 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 290398009854 NAD(P) binding site [chemical binding]; other site 290398009855 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 290398009856 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 290398009857 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290398009858 active site 290398009859 catalytic tetrad [active] 290398009860 hypothetical protein; Validated; Region: PRK02101 290398009861 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 290398009862 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 290398009863 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 290398009864 active site 290398009865 HIGH motif; other site 290398009866 dimer interface [polypeptide binding]; other site 290398009867 KMSKS motif; other site 290398009868 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 290398009869 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 290398009870 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 290398009871 Walker A motif; other site 290398009872 ATP binding site [chemical binding]; other site 290398009873 Walker B motif; other site 290398009874 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 290398009875 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 290398009876 Walker A motif; other site 290398009877 ATP binding site [chemical binding]; other site 290398009878 Walker B motif; other site 290398009879 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 290398009880 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290398009881 catalytic residue [active] 290398009882 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 290398009883 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 290398009884 YGGT family; Region: YGGT; pfam02325 290398009885 YGGT family; Region: YGGT; pfam02325 290398009886 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 290398009887 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 290398009888 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290398009889 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398009890 S-adenosylmethionine binding site [chemical binding]; other site 290398009891 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 290398009892 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 290398009893 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 290398009894 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 290398009895 active site 290398009896 HIGH motif; other site 290398009897 nucleotide binding site [chemical binding]; other site 290398009898 active site 290398009899 KMSKS motif; other site 290398009900 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290398009901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398009902 active site 290398009903 phosphorylation site [posttranslational modification] 290398009904 intermolecular recognition site; other site 290398009905 dimerization interface [polypeptide binding]; other site 290398009906 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398009907 Walker A motif; other site 290398009908 ATP binding site [chemical binding]; other site 290398009909 Walker B motif; other site 290398009910 arginine finger; other site 290398009911 poly(A) polymerase; Region: pcnB; TIGR01942 290398009912 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 290398009913 active site 290398009914 NTP binding site [chemical binding]; other site 290398009915 metal binding triad [ion binding]; metal-binding site 290398009916 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 290398009917 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 290398009918 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 290398009919 catalytic center binding site [active] 290398009920 ATP binding site [chemical binding]; other site 290398009921 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 290398009922 oligomerization interface [polypeptide binding]; other site 290398009923 active site 290398009924 metal binding site [ion binding]; metal-binding site 290398009925 pantoate--beta-alanine ligase; Region: panC; TIGR00018 290398009926 Pantoate-beta-alanine ligase; Region: PanC; cd00560 290398009927 active site 290398009928 ATP-binding site [chemical binding]; other site 290398009929 pantoate-binding site; other site 290398009930 HXXH motif; other site 290398009931 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 290398009932 tetramerization interface [polypeptide binding]; other site 290398009933 active site 290398009934 putative acyltransferase; Provisional; Region: PRK05790 290398009935 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 290398009936 dimer interface [polypeptide binding]; other site 290398009937 active site 290398009938 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 290398009939 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 290398009940 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 290398009941 RNase E interface [polypeptide binding]; other site 290398009942 trimer interface [polypeptide binding]; other site 290398009943 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 290398009944 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 290398009945 RNase E interface [polypeptide binding]; other site 290398009946 trimer interface [polypeptide binding]; other site 290398009947 active site 290398009948 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 290398009949 putative nucleic acid binding region [nucleotide binding]; other site 290398009950 G-X-X-G motif; other site 290398009951 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 290398009952 RNA binding site [nucleotide binding]; other site 290398009953 domain interface; other site 290398009954 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 290398009955 16S/18S rRNA binding site [nucleotide binding]; other site 290398009956 S13e-L30e interaction site [polypeptide binding]; other site 290398009957 25S rRNA binding site [nucleotide binding]; other site 290398009958 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 290398009959 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 290398009960 RNA binding site [nucleotide binding]; other site 290398009961 active site 290398009962 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 290398009963 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 290398009964 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 290398009965 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 290398009966 translation initiation factor IF-2; Region: IF-2; TIGR00487 290398009967 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 290398009968 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 290398009969 G1 box; other site 290398009970 putative GEF interaction site [polypeptide binding]; other site 290398009971 GTP/Mg2+ binding site [chemical binding]; other site 290398009972 Switch I region; other site 290398009973 G2 box; other site 290398009974 G3 box; other site 290398009975 Switch II region; other site 290398009976 G4 box; other site 290398009977 G5 box; other site 290398009978 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 290398009979 Translation-initiation factor 2; Region: IF-2; pfam11987 290398009980 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 290398009981 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 290398009982 NusA N-terminal domain; Region: NusA_N; pfam08529 290398009983 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 290398009984 RNA binding site [nucleotide binding]; other site 290398009985 homodimer interface [polypeptide binding]; other site 290398009986 NusA-like KH domain; Region: KH_5; pfam13184 290398009987 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 290398009988 G-X-X-G motif; other site 290398009989 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 290398009990 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 290398009991 ribosome maturation protein RimP; Reviewed; Region: PRK00092 290398009992 Sm and related proteins; Region: Sm_like; cl00259 290398009993 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 290398009994 putative oligomer interface [polypeptide binding]; other site 290398009995 putative RNA binding site [nucleotide binding]; other site 290398009996 Preprotein translocase SecG subunit; Region: SecG; pfam03840 290398009997 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 290398009998 triosephosphate isomerase; Provisional; Region: PRK14567 290398009999 substrate binding site [chemical binding]; other site 290398010000 dimer interface [polypeptide binding]; other site 290398010001 catalytic triad [active] 290398010002 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 290398010003 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 290398010004 active site 290398010005 substrate binding site [chemical binding]; other site 290398010006 metal binding site [ion binding]; metal-binding site 290398010007 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 290398010008 dihydropteroate synthase; Region: DHPS; TIGR01496 290398010009 substrate binding pocket [chemical binding]; other site 290398010010 dimer interface [polypeptide binding]; other site 290398010011 inhibitor binding site; inhibition site 290398010012 FtsH Extracellular; Region: FtsH_ext; pfam06480 290398010013 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 290398010014 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398010015 Walker A motif; other site 290398010016 ATP binding site [chemical binding]; other site 290398010017 Walker B motif; other site 290398010018 arginine finger; other site 290398010019 Peptidase family M41; Region: Peptidase_M41; pfam01434 290398010020 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 290398010021 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 290398010022 S-adenosylmethionine binding site [chemical binding]; other site 290398010023 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 290398010024 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 290398010025 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 290398010026 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 290398010027 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 290398010028 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290398010029 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290398010030 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 290398010031 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290398010032 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290398010033 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 290398010034 IMP binding site; other site 290398010035 dimer interface [polypeptide binding]; other site 290398010036 interdomain contacts; other site 290398010037 partial ornithine binding site; other site 290398010038 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 290398010039 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 290398010040 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 290398010041 catalytic site [active] 290398010042 subunit interface [polypeptide binding]; other site 290398010043 dihydrodipicolinate reductase; Provisional; Region: PRK00048 290398010044 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 290398010045 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 290398010046 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 290398010047 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 290398010048 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 290398010049 putative ligand binding residues [chemical binding]; other site 290398010050 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290398010051 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 290398010052 ABC-ATPase subunit interface; other site 290398010053 dimer interface [polypeptide binding]; other site 290398010054 putative PBP binding regions; other site 290398010055 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290398010056 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290398010057 Walker A/P-loop; other site 290398010058 ATP binding site [chemical binding]; other site 290398010059 Q-loop/lid; other site 290398010060 ABC transporter signature motif; other site 290398010061 Walker B; other site 290398010062 D-loop; other site 290398010063 H-loop/switch region; other site 290398010064 chaperone protein DnaJ; Provisional; Region: PRK10767 290398010065 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 290398010066 HSP70 interaction site [polypeptide binding]; other site 290398010067 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 290398010068 Zn binding sites [ion binding]; other site 290398010069 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 290398010070 substrate binding site [polypeptide binding]; other site 290398010071 dimer interface [polypeptide binding]; other site 290398010072 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 290398010073 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290398010074 nucleotide binding site [chemical binding]; other site 290398010075 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 290398010076 GrpE; Region: GrpE; pfam01025 290398010077 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 290398010078 dimer interface [polypeptide binding]; other site 290398010079 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 290398010080 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 290398010081 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 290398010082 Walker A/P-loop; other site 290398010083 ATP binding site [chemical binding]; other site 290398010084 Q-loop/lid; other site 290398010085 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 290398010086 ABC transporter signature motif; other site 290398010087 Walker B; other site 290398010088 D-loop; other site 290398010089 H-loop/switch region; other site 290398010090 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290398010091 metal binding site 2 [ion binding]; metal-binding site 290398010092 putative DNA binding helix; other site 290398010093 metal binding site 1 [ion binding]; metal-binding site 290398010094 dimer interface [polypeptide binding]; other site 290398010095 structural Zn2+ binding site [ion binding]; other site 290398010096 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 290398010097 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 290398010098 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 290398010099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 290398010100 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 290398010101 putative coenzyme Q binding site [chemical binding]; other site 290398010102 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 290398010103 SmpB-tmRNA interface; other site 290398010104 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290398010105 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 290398010106 putative mechanosensitive channel protein; Provisional; Region: PRK11465 290398010107 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290398010108 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 290398010109 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 290398010110 HemY protein N-terminus; Region: HemY_N; pfam07219 290398010111 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 290398010112 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 290398010113 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 290398010114 active site 290398010115 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 290398010116 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 290398010117 domain interfaces; other site 290398010118 active site 290398010119 argininosuccinate lyase; Provisional; Region: PRK00855 290398010120 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 290398010121 active sites [active] 290398010122 tetramer interface [polypeptide binding]; other site 290398010123 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 290398010124 diaminopimelate decarboxylase; Region: lysA; TIGR01048 290398010125 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 290398010126 active site 290398010127 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290398010128 substrate binding site [chemical binding]; other site 290398010129 catalytic residues [active] 290398010130 dimer interface [polypeptide binding]; other site 290398010131 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 290398010132 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 290398010133 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 290398010134 Protein of unknown function, DUF484; Region: DUF484; cl17449 290398010135 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 290398010136 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 290398010137 active site 290398010138 DNA binding site [nucleotide binding] 290398010139 Int/Topo IB signature motif; other site 290398010140 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 290398010141 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 290398010142 motif II; other site 290398010143 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 290398010144 G1 box; other site 290398010145 GTP/Mg2+ binding site [chemical binding]; other site 290398010146 Switch I region; other site 290398010147 G2 box; other site 290398010148 G3 box; other site 290398010149 Switch II region; other site 290398010150 G4 box; other site 290398010151 G5 box; other site 290398010152 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 290398010153 catalytic residues [active] 290398010154 hinge region; other site 290398010155 alpha helical domain; other site 290398010156 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 290398010157 putative catalytic site [active] 290398010158 putative metal binding site [ion binding]; other site 290398010159 putative phosphate binding site [ion binding]; other site 290398010160 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 290398010161 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290398010162 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 290398010163 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290398010164 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 290398010165 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 290398010166 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290398010167 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 290398010168 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 290398010169 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 290398010170 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 290398010171 4Fe-4S binding domain; Region: Fer4; pfam00037 290398010172 4Fe-4S binding domain; Region: Fer4; pfam00037 290398010173 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 290398010174 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 290398010175 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 290398010176 catalytic loop [active] 290398010177 iron binding site [ion binding]; other site 290398010178 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 290398010179 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 290398010180 [4Fe-4S] binding site [ion binding]; other site 290398010181 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 290398010182 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 290398010183 SLBB domain; Region: SLBB; pfam10531 290398010184 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 290398010185 NADH dehydrogenase subunit E; Validated; Region: PRK07539 290398010186 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 290398010187 putative dimer interface [polypeptide binding]; other site 290398010188 [2Fe-2S] cluster binding site [ion binding]; other site 290398010189 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 290398010190 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 290398010191 NADH dehydrogenase subunit D; Validated; Region: PRK06075 290398010192 NADH dehydrogenase subunit B; Validated; Region: PRK06411 290398010193 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 290398010194 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 290398010195 dimer interface [polypeptide binding]; other site 290398010196 substrate binding site [chemical binding]; other site 290398010197 ATP binding site [chemical binding]; other site 290398010198 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 290398010199 Ligand Binding Site [chemical binding]; other site 290398010200 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 290398010201 Ligand Binding Site [chemical binding]; other site 290398010202 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 290398010203 putative active site [active] 290398010204 dimerization interface [polypeptide binding]; other site 290398010205 putative tRNAtyr binding site [nucleotide binding]; other site 290398010206 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290398010207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398010208 Walker A/P-loop; other site 290398010209 ATP binding site [chemical binding]; other site 290398010210 Q-loop/lid; other site 290398010211 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398010212 ABC transporter; Region: ABC_tran_2; pfam12848 290398010213 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290398010214 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 290398010215 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290398010216 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398010217 DctM-like transporters; Region: DctM; pfam06808 290398010218 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398010219 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398010220 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 290398010221 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 290398010222 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 290398010223 Predicted permeases [General function prediction only]; Region: COG0679 290398010224 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 290398010225 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 290398010226 putative ligand binding site [chemical binding]; other site 290398010227 putative NAD binding site [chemical binding]; other site 290398010228 catalytic site [active] 290398010229 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 290398010230 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 290398010231 ThiS interaction site; other site 290398010232 putative active site [active] 290398010233 tetramer interface [polypeptide binding]; other site 290398010234 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 290398010235 thiS-thiF/thiG interaction site; other site 290398010236 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 290398010237 amino acid carrier protein; Region: agcS; TIGR00835 290398010238 Protein of unknown function (DUF423); Region: DUF423; pfam04241 290398010239 haemagglutination activity domain; Region: Haemagg_act; pfam05860 290398010240 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 290398010241 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 290398010242 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 290398010243 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 290398010244 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 290398010245 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 290398010246 CoenzymeA binding site [chemical binding]; other site 290398010247 subunit interaction site [polypeptide binding]; other site 290398010248 PHB binding site; other site 290398010249 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 290398010250 active site 290398010251 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 290398010252 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290398010253 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 290398010254 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 290398010255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398010256 homodimer interface [polypeptide binding]; other site 290398010257 catalytic residue [active] 290398010258 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 290398010259 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 290398010260 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 290398010261 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 290398010262 Walker A motif; other site 290398010263 ATP binding site [chemical binding]; other site 290398010264 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 290398010265 Membrane fusogenic activity; Region: BMFP; pfam04380 290398010266 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 290398010267 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290398010268 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 290398010269 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 290398010270 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290398010271 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 290398010272 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 290398010273 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 290398010274 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 290398010275 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398010276 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 290398010277 dimerization interface [polypeptide binding]; other site 290398010278 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 290398010279 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290398010280 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290398010281 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290398010282 active site 290398010283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 290398010284 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 290398010285 Probable transposase; Region: OrfB_IS605; pfam01385 290398010286 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 290398010287 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 290398010288 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 290398010289 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 290398010290 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 290398010291 conserved cys residue [active] 290398010292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398010293 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 290398010294 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 290398010295 substrate binding pocket [chemical binding]; other site 290398010296 active site 290398010297 iron coordination sites [ion binding]; other site 290398010298 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 290398010299 active site 290398010300 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 290398010301 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 290398010302 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290398010303 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 290398010304 GntP family permease; Region: GntP_permease; pfam02447 290398010305 fructuronate transporter; Provisional; Region: PRK10034; cl15264 290398010306 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290398010307 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 290398010308 putative NAD(P) binding site [chemical binding]; other site 290398010309 active site 290398010310 putative substrate binding site [chemical binding]; other site 290398010311 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398010312 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398010313 DNA-binding site [nucleotide binding]; DNA binding site 290398010314 FCD domain; Region: FCD; pfam07729 290398010315 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 290398010316 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290398010317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 290398010318 putative aldolase; Validated; Region: PRK08130 290398010319 intersubunit interface [polypeptide binding]; other site 290398010320 active site 290398010321 Zn2+ binding site [ion binding]; other site 290398010322 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 290398010323 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 290398010324 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398010325 N-terminal plug; other site 290398010326 ligand-binding site [chemical binding]; other site 290398010327 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 290398010328 ATP binding site [chemical binding]; other site 290398010329 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 290398010330 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 290398010331 ATP binding site [chemical binding]; other site 290398010332 Mg++ binding site [ion binding]; other site 290398010333 motif III; other site 290398010334 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398010335 nucleotide binding region [chemical binding]; other site 290398010336 ATP-binding site [chemical binding]; other site 290398010337 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 290398010338 putative RNA binding site [nucleotide binding]; other site 290398010339 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 290398010340 dimerization interface [polypeptide binding]; other site 290398010341 metal binding site [ion binding]; metal-binding site 290398010342 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 290398010343 CoA-transferase family III; Region: CoA_transf_3; pfam02515 290398010344 enoyl-CoA hydratase; Provisional; Region: PRK06144 290398010345 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 290398010346 substrate binding site [chemical binding]; other site 290398010347 oxyanion hole (OAH) forming residues; other site 290398010348 trimer interface [polypeptide binding]; other site 290398010349 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 290398010350 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 290398010351 trimer interface [polypeptide binding]; other site 290398010352 putative metal binding site [ion binding]; other site 290398010353 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 290398010354 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290398010355 succinic semialdehyde dehydrogenase; Region: PLN02278 290398010356 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 290398010357 tetramerization interface [polypeptide binding]; other site 290398010358 NAD(P) binding site [chemical binding]; other site 290398010359 catalytic residues [active] 290398010360 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290398010361 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 290398010362 putative NAD(P) binding site [chemical binding]; other site 290398010363 active site 290398010364 putative substrate binding site [chemical binding]; other site 290398010365 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398010366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398010367 DNA-binding site [nucleotide binding]; DNA binding site 290398010368 FCD domain; Region: FCD; pfam07729 290398010369 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 290398010370 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 290398010371 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 290398010372 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 290398010373 putative active site pocket [active] 290398010374 putative metal binding site [ion binding]; other site 290398010375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290398010376 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290398010377 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 290398010378 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290398010379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290398010380 DNA-binding site [nucleotide binding]; DNA binding site 290398010381 FCD domain; Region: FCD; pfam07729 290398010382 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 290398010383 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 290398010384 Part of AAA domain; Region: AAA_19; pfam13245 290398010385 Family description; Region: UvrD_C_2; pfam13538 290398010386 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 290398010387 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290398010388 active site 290398010389 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 290398010390 putative active site [active] 290398010391 putative catalytic site [active] 290398010392 putative DNA binding site [nucleotide binding]; other site 290398010393 putative phosphate binding site [ion binding]; other site 290398010394 metal binding site A [ion binding]; metal-binding site 290398010395 putative AP binding site [nucleotide binding]; other site 290398010396 putative metal binding site B [ion binding]; other site 290398010397 ribonuclease PH; Reviewed; Region: rph; PRK00173 290398010398 Ribonuclease PH; Region: RNase_PH_bact; cd11362 290398010399 hexamer interface [polypeptide binding]; other site 290398010400 active site 290398010401 hypothetical protein; Provisional; Region: PRK11820 290398010402 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 290398010403 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 290398010404 High-affinity nickel-transport protein; Region: NicO; cl00964 290398010405 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 290398010406 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 290398010407 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290398010408 extended (e) SDRs; Region: SDR_e; cd08946 290398010409 NAD(P) binding site [chemical binding]; other site 290398010410 active site 290398010411 substrate binding site [chemical binding]; other site 290398010412 DctM-like transporters; Region: DctM; pfam06808 290398010413 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290398010414 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290398010415 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290398010416 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290398010417 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 290398010418 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 290398010419 dimer interface [polypeptide binding]; other site 290398010420 active site 290398010421 catalytic residue [active] 290398010422 metal binding site [ion binding]; metal-binding site 290398010423 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290398010424 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290398010425 DNA binding site [nucleotide binding] 290398010426 domain linker motif; other site 290398010427 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 290398010428 putative dimerization interface [polypeptide binding]; other site 290398010429 putative ligand binding site [chemical binding]; other site 290398010430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 290398010431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398010432 cyanate transporter; Region: CynX; TIGR00896 290398010433 putative substrate translocation pore; other site 290398010434 Uncharacterized conserved protein [Function unknown]; Region: COG0398 290398010435 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 290398010436 mercuric reductase; Validated; Region: PRK06370 290398010437 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290398010438 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398010439 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290398010440 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 290398010441 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 290398010442 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 290398010443 Probable Catalytic site; other site 290398010444 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290398010445 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 290398010446 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 290398010447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290398010448 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 290398010449 Walker A/P-loop; other site 290398010450 ATP binding site [chemical binding]; other site 290398010451 Q-loop/lid; other site 290398010452 ABC transporter signature motif; other site 290398010453 Walker B; other site 290398010454 D-loop; other site 290398010455 H-loop/switch region; other site 290398010456 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 290398010457 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398010458 dimer interface [polypeptide binding]; other site 290398010459 conserved gate region; other site 290398010460 putative PBP binding loops; other site 290398010461 ABC-ATPase subunit interface; other site 290398010462 hypothetical protein; Provisional; Region: PRK11622 290398010463 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 290398010464 Phosphotransferase enzyme family; Region: APH; pfam01636 290398010465 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 290398010466 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 290398010467 Protein with unknown function (DUF469); Region: DUF469; cl01237 290398010468 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 290398010469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 290398010470 putative substrate translocation pore; other site 290398010471 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 290398010472 catalytic core [active] 290398010473 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 290398010474 active site 290398010475 substrate binding pocket [chemical binding]; other site 290398010476 dimer interface [polypeptide binding]; other site 290398010477 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 290398010478 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 290398010479 catalytic site [active] 290398010480 G-X2-G-X-G-K; other site 290398010481 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 290398010482 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 290398010483 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290398010484 Zn2+ binding site [ion binding]; other site 290398010485 Mg2+ binding site [ion binding]; other site 290398010486 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290398010487 synthetase active site [active] 290398010488 NTP binding site [chemical binding]; other site 290398010489 metal binding site [ion binding]; metal-binding site 290398010490 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 290398010491 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 290398010492 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 290398010493 homotrimer interaction site [polypeptide binding]; other site 290398010494 putative active site [active] 290398010495 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 290398010496 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290398010497 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398010498 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290398010499 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290398010500 HlyD family secretion protein; Region: HlyD_3; pfam13437 290398010501 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290398010502 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 290398010503 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 290398010504 PcfJ-like protein; Region: PcfJ; pfam14284 290398010505 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 290398010506 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290398010507 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 290398010508 putative NAD(P) binding site [chemical binding]; other site 290398010509 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 290398010510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290398010511 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 290398010512 dimerization interface [polypeptide binding]; other site 290398010513 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 290398010514 Y-family of DNA polymerases; Region: PolY; cl12025 290398010515 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 290398010516 generic binding surface II; other site 290398010517 ssDNA binding site; other site 290398010518 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 290398010519 ATP binding site [chemical binding]; other site 290398010520 putative Mg++ binding site [ion binding]; other site 290398010521 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 290398010522 nucleotide binding region [chemical binding]; other site 290398010523 ATP-binding site [chemical binding]; other site 290398010524 transcriptional repressor DicA; Reviewed; Region: PRK09706 290398010525 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 290398010526 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 290398010527 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 290398010528 IHF dimer interface [polypeptide binding]; other site 290398010529 IHF - DNA interface [nucleotide binding]; other site 290398010530 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 290398010531 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290398010532 Chorismate lyase; Region: Chor_lyase; cl01230 290398010533 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 290398010534 UbiA prenyltransferase family; Region: UbiA; pfam01040 290398010535 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 290398010536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 290398010537 active site 290398010538 phosphorylation site [posttranslational modification] 290398010539 intermolecular recognition site; other site 290398010540 dimerization interface [polypeptide binding]; other site 290398010541 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 290398010542 DNA binding site [nucleotide binding] 290398010543 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 290398010544 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290398010545 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 290398010546 putative active site [active] 290398010547 heme pocket [chemical binding]; other site 290398010548 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 290398010549 dimer interface [polypeptide binding]; other site 290398010550 phosphorylation site [posttranslational modification] 290398010551 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 290398010552 ATP binding site [chemical binding]; other site 290398010553 Mg2+ binding site [ion binding]; other site 290398010554 G-X-G motif; other site 290398010555 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290398010556 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 290398010557 putative dimer interface [polypeptide binding]; other site 290398010558 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290398010559 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 290398010560 putative dimer interface [polypeptide binding]; other site 290398010561 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 290398010562 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 290398010563 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 290398010564 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 290398010565 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 290398010566 N-terminal plug; other site 290398010567 ligand-binding site [chemical binding]; other site 290398010568 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290398010569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290398010570 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 290398010571 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 290398010572 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 290398010573 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 290398010574 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 290398010575 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290398010576 GAF domain; Region: GAF; pfam01590 290398010577 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 290398010578 transcriptional regulator PhoU; Provisional; Region: PRK11115 290398010579 PhoU domain; Region: PhoU; pfam01895 290398010580 PhoU domain; Region: PhoU; pfam01895 290398010581 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 290398010582 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 290398010583 Walker A/P-loop; other site 290398010584 ATP binding site [chemical binding]; other site 290398010585 Q-loop/lid; other site 290398010586 ABC transporter signature motif; other site 290398010587 Walker B; other site 290398010588 D-loop; other site 290398010589 H-loop/switch region; other site 290398010590 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 290398010591 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398010592 dimer interface [polypeptide binding]; other site 290398010593 conserved gate region; other site 290398010594 putative PBP binding loops; other site 290398010595 ABC-ATPase subunit interface; other site 290398010596 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 290398010597 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398010598 ABC-ATPase subunit interface; other site 290398010599 PBP superfamily domain; Region: PBP_like_2; cl17296 290398010600 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 290398010601 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 290398010602 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 290398010603 Part of AAA domain; Region: AAA_19; pfam13245 290398010604 Family description; Region: UvrD_C_2; pfam13538 290398010605 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 290398010606 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290398010607 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 290398010608 putative active site [active] 290398010609 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 290398010610 Na2 binding site [ion binding]; other site 290398010611 putative substrate binding site 1 [chemical binding]; other site 290398010612 Na binding site 1 [ion binding]; other site 290398010613 putative substrate binding site 2 [chemical binding]; other site 290398010614 Protein of unknown function DUF72; Region: DUF72; cl00777 290398010615 Uncharacterized conserved protein [Function unknown]; Region: COG1284 290398010616 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 290398010617 MltA specific insert domain; Region: MltA; smart00925 290398010618 3D domain; Region: 3D; pfam06725 290398010619 short chain dehydrogenase; Provisional; Region: PRK06197 290398010620 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 290398010621 putative NAD(P) binding site [chemical binding]; other site 290398010622 active site 290398010623 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 290398010624 dimer interface [polypeptide binding]; other site 290398010625 active site 290398010626 Schiff base residues; other site 290398010627 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 290398010628 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 290398010629 glutaminase active site [active] 290398010630 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 290398010631 dimer interface [polypeptide binding]; other site 290398010632 active site 290398010633 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 290398010634 dimer interface [polypeptide binding]; other site 290398010635 active site 290398010636 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 290398010637 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 290398010638 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290398010639 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 290398010640 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 290398010641 Substrate binding site; other site 290398010642 Mg++ binding site; other site 290398010643 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 290398010644 active site 290398010645 substrate binding site [chemical binding]; other site 290398010646 CoA binding site [chemical binding]; other site 290398010647 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 290398010648 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 290398010649 gamma subunit interface [polypeptide binding]; other site 290398010650 epsilon subunit interface [polypeptide binding]; other site 290398010651 LBP interface [polypeptide binding]; other site 290398010652 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 290398010653 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290398010654 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 290398010655 alpha subunit interaction interface [polypeptide binding]; other site 290398010656 Walker A motif; other site 290398010657 ATP binding site [chemical binding]; other site 290398010658 Walker B motif; other site 290398010659 inhibitor binding site; inhibition site 290398010660 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 290398010661 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 290398010662 core domain interface [polypeptide binding]; other site 290398010663 delta subunit interface [polypeptide binding]; other site 290398010664 epsilon subunit interface [polypeptide binding]; other site 290398010665 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 290398010666 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290398010667 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 290398010668 beta subunit interaction interface [polypeptide binding]; other site 290398010669 Walker A motif; other site 290398010670 ATP binding site [chemical binding]; other site 290398010671 Walker B motif; other site 290398010672 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 290398010673 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 290398010674 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 290398010675 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 290398010676 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 290398010677 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 290398010678 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 290398010679 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 290398010680 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 290398010681 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 290398010682 ParB-like nuclease domain; Region: ParBc; pfam02195 290398010683 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 290398010684 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 290398010685 P-loop; other site 290398010686 Magnesium ion binding site [ion binding]; other site 290398010687 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 290398010688 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 290398010689 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 290398010690 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 290398010691 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 290398010692 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290398010693 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290398010694 Walker A/P-loop; other site 290398010695 ATP binding site [chemical binding]; other site 290398010696 Q-loop/lid; other site 290398010697 ABC transporter signature motif; other site 290398010698 Walker B; other site 290398010699 D-loop; other site 290398010700 H-loop/switch region; other site 290398010701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 290398010702 dimer interface [polypeptide binding]; other site 290398010703 conserved gate region; other site 290398010704 putative PBP binding loops; other site 290398010705 ABC-ATPase subunit interface; other site 290398010706 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 290398010707 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 290398010708 substrate binding pocket [chemical binding]; other site 290398010709 membrane-bound complex binding site; other site 290398010710 hinge residues; other site 290398010711 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 290398010712 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 290398010713 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 290398010714 Cl- selectivity filter; other site 290398010715 Cl- binding residues [ion binding]; other site 290398010716 pore gating glutamate residue; other site 290398010717 dimer interface [polypeptide binding]; other site 290398010718 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 290398010719 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 290398010720 substrate binding site [chemical binding]; other site 290398010721 dimer interface [polypeptide binding]; other site 290398010722 ATP binding site [chemical binding]; other site 290398010723 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 290398010724 thiamine phosphate binding site [chemical binding]; other site 290398010725 active site 290398010726 pyrophosphate binding site [ion binding]; other site 290398010727 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 290398010728 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 290398010729 inhibitor-cofactor binding pocket; inhibition site 290398010730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290398010731 catalytic residue [active] 290398010732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 290398010733 AAA domain; Region: AAA_33; pfam13671 290398010734 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 290398010735 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 290398010736 DNA binding residues [nucleotide binding] 290398010737 dimerization interface [polypeptide binding]; other site 290398010738 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 290398010739 active site 290398010740 dimerization interface [polypeptide binding]; other site 290398010741 HemN family oxidoreductase; Provisional; Region: PRK05660 290398010742 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 290398010743 FeS/SAM binding site; other site 290398010744 HemN C-terminal domain; Region: HemN_C; pfam06969 290398010745 putative outer membrane lipoprotein; Provisional; Region: PRK10510 290398010746 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290398010747 ligand binding site [chemical binding]; other site 290398010748 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 290398010749 Imelysin; Region: Peptidase_M75; pfam09375 290398010750 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 290398010751 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 290398010752 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 290398010753 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 290398010754 Imelysin; Region: Peptidase_M75; pfam09375 290398010755 Iron permease FTR1 family; Region: FTR1; cl00475 290398010756 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 290398010757 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 290398010758 trmE is a tRNA modification GTPase; Region: trmE; cd04164 290398010759 G1 box; other site 290398010760 GTP/Mg2+ binding site [chemical binding]; other site 290398010761 Switch I region; other site 290398010762 G2 box; other site 290398010763 Switch II region; other site 290398010764 G3 box; other site 290398010765 G4 box; other site 290398010766 G5 box; other site 290398010767 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 290398010768 membrane protein insertase; Provisional; Region: PRK01318 290398010769 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 290398010770 ribonuclease P; Reviewed; Region: rnpA; PRK00396 290398010771 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399